NCBI Conserved Domain Search

Conserved domains on [gi|880811338|ref|WP_048663032|]

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MULTISPECIES: PAS domain-containing hybrid sensor histidine kinase/response regulator [Vibrio]

Protein Classification

PAS domain-containing hybrid sensor histidine kinase/response regulator( domain architecture ID 11426751)

PAS domain-containing hybrid sensor histidine kinase/response regulator with an N-terminal domain related to SLC5 solute-binding domains, part of a two-component regulatory system, receives the signal from the sensor partner in a two-component system through its receiver (REC) domain and functions as a protein kinase that phosphorylates a target protein in response to various signals

CATH: 3.40.50.2300|3.30.565.10|3.30.450.20

EC: 2.7.13.3

Gene Ontology: GO:0000160|GO:0000156|GO:0000155|GO:0004673|GO:0007165|GO:0005524

PubMed: 20226724|10339418|10637609|15009198|9382818

SCOP: 4003632|4001957|3000471

Graphical summary

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List of domain hits

Name

Accession

Description

Interval

E-value

KdpD

COG2205

K+-sensing histidine kinase KdpD [Signal transduction mechanisms];

774-1006

9.32e-61

K+-sensing histidine kinase KdpD [Signal transduction mechanisms];

Pssm-ID: 441807 [Multi-domain] Cd Length: 239 Bit Score: 207.84 E-value: 9.32e-61

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  774 RLVKATQISDQESQSKSRFLAAVSHDLMQPLNAARLFASSLSEVAK--EQEVKQLSSHIESALGAAEDLIGDLLDISRLE 851
Cdd:COG2205     1 ELEEALEELEELERLKSEFLANVSHELRTPLTSILGAAELLLDEEDlsPEERRELLEIIRESAERLLRLIEDLLDLSRLE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  852 SGKLETNIHAIAVHDVLTNLNAEFSALA--RQQKIEFKMIPSSLFIHSDPKLLRRVIQNFLTNAFRYNPEG-KVVLGARR 928
Cdd:COG2205    81 SGKLSLELEPVDLAELLEEAVEELRPLAeeKGIRLELDLPPELPLVYADPELLEQVLANLLDNAIKYSPPGgTITISARR 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 880811338  929 VNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQGLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSITLARAE 1006
Cdd:COG2205   161 EGDGVRISVSDNGPGIPEEELERIFERFYRGDNSRGEGGTGLGLAIVKRIVEAHGGTIWVESEPGGGTTFTVTLPLAE 238

PAS_7

pfam12860

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...

634-748

2.56e-53

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya.

Pssm-ID: 432837 [Multi-domain] Cd Length: 115 Bit Score: 181.58 E-value: 2.56e-53

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   634 IEHIGQGIAVIDKQMRLVAWNQRYLELFEFPAGLIQVGRPISDVIRHNAEQGLCGPGDPEDHVRRRVYHLEQGTRHTSSR 713
Cdd:pfam12860    1 LENMSQGLSVFDADLRLVAWNRRYRELLDLPEDLVQVGVPFEEIIRYNAERGEYGPGDVEAHVRRRLAAARAGSPHYFER 80

                           90       100       110
                   ....*....|....*....|....*....|....*
gi 880811338   714 IRPDGRVIEVQGNPMPSGGFVMSFTDITVFRQAEQ 748
Cdd:pfam12860   81 ERPDGRVIEIRGNPLPDGGFVTTFTDITERRRAEE 115

SLC5sbd

cd10322

Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding ...

5-448

2.41e-50

Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; This family represents the solute-binding domain of SLC5 proteins (also called the sodium/glucose cotransporter family or solute sodium symporter family) that co-transport Na+ with sugars, amino acids, inorganic ions or vitamins. Family members include: the human glucose (SGLT1, 2, 4, 5), chiro-inositol (SGLT5), myo-inositol (SMIT), choline (CHT), iodide (NIS), multivitamin (SMVT), and monocarboxylate (SMCT) cotransporters, as well as Vibrio parahaemolyticus glucose/galactose (vSGLT), and Escherichia coli proline (PutP) and pantothenate (PutF) cotransporters. Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) has 13 transmembrane helices (TMs): TM-1, an inverted topology repeat: TMs1-5 and TMs6-10, and TMs 11-12 (TMs numbered to conform to the solute carrier 6 family Aquifex aeolicus LeuT). One member of this family, human SGLT3, has been characterized as a glucose sensor and not a transporter. Members of this family are important in human physiology and disease.

Pssm-ID: 271357 [Multi-domain] Cd Length: 454 Bit Score: 185.07 E-value: 2.41e-50

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338    5 IVIPVSLAYLGVLFLIAWYGDRQVRWLSRW-------RPWIYSLS-IAVYCTSWTFYGTVGQASNNPWSFLPIYLAPILV 76
Cdd:cd10322     1 IDLIIVVVYLALLLGIGLYASKKVKSSEDFflagrslGPWLLAGTlAATWISAGSFVGVAGLAYTYGLSAIWYILGAALG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   77 FTLGWRILARLILIAKREHItsiADFIAARYGkSQGLAVAVTVIAVVGILPYIALQLRGITMGLDIVAPSlaqdfgyqDY 156
Cdd:cd10322    81 ALLLALFLAPRLRRLGKTTI---PETILERYY-SKGLRLLVAIIIIIALIPYLALQLIGGGYILSTLLGI--------PY 148

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  157 HVSWFVVGALAIFTMLFGTRhidntehhRGMMMAVAFESIVKLAAFLIVGLFIMYLA----MSS--DKIDLLDVAASTYE 230
Cdd:cd10322   149 TVAVIIAAVIVILYTVFGGM--------RAVAWTDVIQGIVMLIGVLVAAIFILSKVggggFSAlaAALPALLLALGPGG 220

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  231 SPNIPTLIIHTVLTMLAIVCLPRQFHTMVVENerpqDLHTAR---WLFPLYLILMGLFVLPIAWAGQGLLPSMP-ADTYV 306
Cdd:cd10322   221 GLGWSTILSLILLTGLGVLALPQVFQRILAAK----DEKTARrafLLAGLLLLLIGFLVALIGLAARALFPDLEnPDLAL 296

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  307 ISLPMAEGANHIALLAFLGGTSAASGMVIVSTIALAIMVSNDLVMPLLLRRMRLTQRTH--RHFSGLLLVIrrglillll 384
Cdd:cd10322   297 PTLINSLLPPGLAGLVLAGLLAAAMSTADSLLLAASTLFTRDIYKPLINPKASDKKLLRvsRIAVVVVGVL--------- 367

                         410       420       430       440       450       460
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 880811338  385 lgAWLFYQALDTIhsLSAIGFLSFAAIAQFAPALIGGLYWRPGNRKGVYVGLMVGSVIWLITLM 448
Cdd:cd10322   368 --ALLLALLPPSI--LLLLSLAAGLLAAALFPPLLGGLFWKRATKAGAIAGIIVGLIVTLVWLL 427

CheY

COG0784

CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...

1021-1142

1.39e-14

CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator Spo0F [Signal transduction mechanisms];

Pssm-ID: 440547 [Multi-domain] Cd Length: 128 Bit Score: 71.42 E-value: 1.39e-14

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1021 SDIEHLKILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDDwQPDVIFSDYRLDnGRTGLEVLQqcRLRLGDS 1100
Cdd:COG0784     1 PPLGGKRILVVDDNPDNRELLRRLLERLGYEVTTAEDGAEALELLRAG-PPDLILLDINMP-GMDGLELLR--RIRALPR 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 880811338 1101 FEG---VIISA-DRTDDMLAAIKANSFSFIAKPVKPLKLRAVLNRV 1142
Cdd:COG0784    77 LPDipiIALTAyADEEDRERALEAGADDYLTKPVDPEELLEALRRL 122

Name

Accession

Description

Interval

E-value

KdpD

COG2205

K+-sensing histidine kinase KdpD [Signal transduction mechanisms];

774-1006

9.32e-61

K+-sensing histidine kinase KdpD [Signal transduction mechanisms];

Pssm-ID: 441807 [Multi-domain] Cd Length: 239 Bit Score: 207.84 E-value: 9.32e-61

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  774 RLVKATQISDQESQSKSRFLAAVSHDLMQPLNAARLFASSLSEVAK--EQEVKQLSSHIESALGAAEDLIGDLLDISRLE 851
Cdd:COG2205     1 ELEEALEELEELERLKSEFLANVSHELRTPLTSILGAAELLLDEEDlsPEERRELLEIIRESAERLLRLIEDLLDLSRLE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  852 SGKLETNIHAIAVHDVLTNLNAEFSALA--RQQKIEFKMIPSSLFIHSDPKLLRRVIQNFLTNAFRYNPEG-KVVLGARR 928
Cdd:COG2205    81 SGKLSLELEPVDLAELLEEAVEELRPLAeeKGIRLELDLPPELPLVYADPELLEQVLANLLDNAIKYSPPGgTITISARR 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 880811338  929 VNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQGLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSITLARAE 1006
Cdd:COG2205   161 EGDGVRISVSDNGPGIPEEELERIFERFYRGDNSRGEGGTGLGLAIVKRIVEAHGGTIWVESEPGGGTTFTVTLPLAE 238

PAS_7

pfam12860

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...

634-748

2.56e-53

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya.

Pssm-ID: 432837 [Multi-domain] Cd Length: 115 Bit Score: 181.58 E-value: 2.56e-53

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   634 IEHIGQGIAVIDKQMRLVAWNQRYLELFEFPAGLIQVGRPISDVIRHNAEQGLCGPGDPEDHVRRRVYHLEQGTRHTSSR 713
Cdd:pfam12860    1 LENMSQGLSVFDADLRLVAWNRRYRELLDLPEDLVQVGVPFEEIIRYNAERGEYGPGDVEAHVRRRLAAARAGSPHYFER 80

                           90       100       110
                   ....*....|....*....|....*....|....*
gi 880811338   714 IRPDGRVIEVQGNPMPSGGFVMSFTDITVFRQAEQ 748
Cdd:pfam12860   81 ERPDGRVIEIRGNPLPDGGFVTTFTDITERRRAEE 115

SLC5sbd

cd10322

Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding ...

5-448

2.41e-50

Pssm-ID: 271357 [Multi-domain] Cd Length: 454 Bit Score: 185.07 E-value: 2.41e-50

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338    5 IVIPVSLAYLGVLFLIAWYGDRQVRWLSRW-------RPWIYSLS-IAVYCTSWTFYGTVGQASNNPWSFLPIYLAPILV 76
Cdd:cd10322     1 IDLIIVVVYLALLLGIGLYASKKVKSSEDFflagrslGPWLLAGTlAATWISAGSFVGVAGLAYTYGLSAIWYILGAALG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   77 FTLGWRILARLILIAKREHItsiADFIAARYGkSQGLAVAVTVIAVVGILPYIALQLRGITMGLDIVAPSlaqdfgyqDY 156
Cdd:cd10322    81 ALLLALFLAPRLRRLGKTTI---PETILERYY-SKGLRLLVAIIIIIALIPYLALQLIGGGYILSTLLGI--------PY 148

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  157 HVSWFVVGALAIFTMLFGTRhidntehhRGMMMAVAFESIVKLAAFLIVGLFIMYLA----MSS--DKIDLLDVAASTYE 230
Cdd:cd10322   149 TVAVIIAAVIVILYTVFGGM--------RAVAWTDVIQGIVMLIGVLVAAIFILSKVggggFSAlaAALPALLLALGPGG 220

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  231 SPNIPTLIIHTVLTMLAIVCLPRQFHTMVVENerpqDLHTAR---WLFPLYLILMGLFVLPIAWAGQGLLPSMP-ADTYV 306
Cdd:cd10322   221 GLGWSTILSLILLTGLGVLALPQVFQRILAAK----DEKTARrafLLAGLLLLLIGFLVALIGLAARALFPDLEnPDLAL 296

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  307 ISLPMAEGANHIALLAFLGGTSAASGMVIVSTIALAIMVSNDLVMPLLLRRMRLTQRTH--RHFSGLLLVIrrglillll 384
Cdd:cd10322   297 PTLINSLLPPGLAGLVLAGLLAAAMSTADSLLLAASTLFTRDIYKPLINPKASDKKLLRvsRIAVVVVGVL--------- 367

                         410       420       430       440       450       460
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 880811338  385 lgAWLFYQALDTIhsLSAIGFLSFAAIAQFAPALIGGLYWRPGNRKGVYVGLMVGSVIWLITLM 448
Cdd:cd10322   368 --ALLLALLPPSI--LLLLSLAAGLLAAALFPPLLGGLFWKRATKAGAIAGIIVGLIVTLVWLL 427

PRK15347

two component system sensor kinase;

749-1019

2.89e-32

two component system sensor kinase;

Pssm-ID: 237951 [Multi-domain] Cd Length: 921 Bit Score: 135.92 E-value: 2.89e-32

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  749 ALKDANESLESRVHERTQELEKlnhrlvkATQISDQESQSKSRFLAAVSHDLMQPLNAArLFASSL---SEVAKEQevKQ 825
Cdd:PRK15347  365 TLNEQYDTLENKVAERTQALAE-------AKQRAEQANKRKSEHLTTISHEIRTPLNGV-LGALELlqnTPLTAEQ--MD 434

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  826 LsshIESALGAAEDL---IGDLLDISRLESGKLETNIHAIAVHDVLTNLNAEFSALARQQKIEFKMIPSS---LFIHSDP 899
Cdd:PRK15347  435 L---ADTARQCTLSLlaiINNLLDFSRIESGQMTLSLEETALLPLLDQAMLTIQGPAQSKSLTLRTFVGAhvpLYLHLDS 511

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  900 KLLRRVIQNFLTNAFRYNPEGKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQvrSDQGLGLGLAISKGIA 979
Cdd:PRK15347  512 LRLRQILVNLLGNAVKFTETGGIRLRVKRHEQQLCFTVEDTGCGIDIQQQQQIFTPFYQADT--HSQGTGLGLTIASSLA 589

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|...
gi 880811338  980 HVLGHQISMRSWPGQGSVFSITLARAEKVAPVV---QASAPMA 1019
Cdd:PRK15347  590 KMMGGELTLFSTPGVGSCFSLVLPLNEYAPPEPlkgELSAPLA 632

HATPase

cd00075

Histidine kinase-like ATPase domain; This superfamily includes the histidine kinase-like ...

902-1002

6.52e-32

Histidine kinase-like ATPase domain; This superfamily includes the histidine kinase-like ATPase (HATPase) domains of several ATP-binding proteins such as histidine kinase, DNA gyrase B, topoisomerases, heat shock protein 90 (HSP90), phytochrome-like ATPases and DNA mismatch repair proteins. Domains belonging to this superfamily are also referred to as GHKL (gyrase, heat-shock protein 90, histidine kinase, MutL) ATPase domains.

Pssm-ID: 340391 [Multi-domain] Cd Length: 102 Bit Score: 120.02 E-value: 6.52e-32

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  902 LRRVIQNFLTNAFRYNPEGKVV-LGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQGLGLGLAISKGIAH 980
Cdd:cd00075     1 LEQVLSNLLDNALKYSPPGGTIeISLRQEGDGVVLEVEDNGPGIPEEDLERIFERFYRGDKSREGGGTGLGLAIVRRIVE 80

                          90       100
                  ....*....|....*....|..
gi 880811338  981 VLGHQISMRSWPGQGSVFSITL 1002
Cdd:cd00075    81 AHGGRITVESEPGGGTTFTVTL 102

HATPase_c

smart00387

Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.

898-1002

7.30e-30

Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.

Pssm-ID: 214643 [Multi-domain] Cd Length: 111 Bit Score: 114.67 E-value: 7.30e-30

                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338    898 DPKLLRRVIQNFLTNAFRYNPE-GKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSD-QGLGLGLAIS 975
Cdd:smart00387    2 DPDRLRQVLSNLLDNAIKYTPEgGRITVTLERDGDHVEITVEDNGPGIPPEDLEKIFEPFFRTDKRSRKiGGTGLGLSIV 81

                            90       100
                    ....*....|....*....|....*..
gi 880811338    976 KGIAHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:smart00387   82 KKLVELHGGEISVESEPGGGTTFTITL 108

HATPase_c

pfam02518

Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the ...

898-1002

3.54e-24

Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90.

Pssm-ID: 460579 [Multi-domain] Cd Length: 109 Bit Score: 98.21 E-value: 3.54e-24

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   898 DPKLLRRVIQNFLTNAFRYNP---EGKVVLgarRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSqVRSDQGLGLGLAI 974
Cdd:pfam02518    2 DELRLRQVLSNLLDNALKHAAkagEITVTL---SEGGELTLTVEDNGIGIPPEDLPRIFEPFSTAD-KRGGGGTGLGLSI 77

                           90       100
                   ....*....|....*....|....*...
gi 880811338   975 SKGIAHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:pfam02518   78 VRKLVELLGGTITVESEPGGGTTVTLTL 105

PutP

COG0591

Na+/proline symporter [Amino acid transport and metabolism];

4-512

8.79e-24

Na+/proline symporter [Amino acid transport and metabolism];

Pssm-ID: 440356 [Multi-domain] Cd Length: 476 Bit Score: 106.44 E-value: 8.79e-24

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338    4 WIVIpvsLAYLGVLFLIAWYGDRQVRWLSRW-------RPWIYSLSI-AVYCTSWTFYGTVGQASNNPWSFLPIYLAPIL 75
Cdd:COG0591     6 LIII---ILYLLLLLGIGLYASRRTKSLEDYflagrslGWWVLALSLgATWLSAWTFLGVPGLAYAYGLSALWYALGYAL 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   76 VFTLGWRILARLIliaKREHITSIADFIAARYGKsqGLAVAVTVIAVVGILPYIALQLRGITMGLDIVapslaqdFGYqD 155
Cdd:COG0591    83 GALLLALFFAPRL---RRLGALTIPEFLEKRFGR--GLRLLAAIIILLFLLGYLAAQLVALGKLLEAL-------FGI-P 149

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  156 YHVS-WFVVGALAIFTMLFGtrhidntehhrgmMMAVA----FESIVKLAAFLIVGLFIMY----------LAMSSDKID 220
Cdd:COG0591   150 YWLGiLIGALIVLLYTVLGG-------------LRAVAwtdvLQGILMLVGLILLLIVALSalggfgelfaALPAPGLLS 216

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  221 LLDVAASTyespNIPTLIIHTVLTMLAIVCLPRQFH-TMVVENERpqDLHTARWLFPLYLILMGLFVLPIAWAGQGLLPS 299
Cdd:COG0591   217 LFPGLGFT----GWLAFLGLFLAIGLGYFGQPHIVQrFLAAKSEK--EARKAALIGGLLYLLFYLLAALIGLLARALFPD 290

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  300 MPADTYVISLP-MAEGANHIALLAFLGGTSAASGMVIVST--IALAIMVSNDLVMPLLLRRMrlTQRTHRHFSGLLLVIR 376
Cdd:COG0591   291 LPLADPDLALPlLILELLPPGLAGLLLAAILAAAMSTADSqlLAASSVFTRDIYKPFIKPKA--SDKQLLRVSRLAVLVV 368

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  377 RGLilllllgAWLFyqALDTIHSLSAIGFLSFAAIAQ-FAPALIGGLYWRPGNRKGVYVGLMVGSVIWLItlmsqtsmla 455
Cdd:COG0591   369 GLL-------ALLL--ALLFPSSILDLVLLAWGGLGAaLLPPLLLGLFWKRATKAGALAGMIAGLVVVLL---------- 429

                         490       500       510       520       530
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 880811338  456 gdsesnlllWMITPPellsSWNISSSNWGIVLSIVLNTLCYAVVSMSTRPSLSERLQ 512
Cdd:COG0591   430 ---------WKLLGG----PLGPFGWLYPILPGLLVSLLVFVVVSLLTKPPSEEVLE 473

CheY

COG0784

CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...

1021-1142

1.39e-14

CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator Spo0F [Signal transduction mechanisms];

Pssm-ID: 440547 [Multi-domain] Cd Length: 128 Bit Score: 71.42 E-value: 1.39e-14

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1021 SDIEHLKILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDDwQPDVIFSDYRLDnGRTGLEVLQqcRLRLGDS 1100
Cdd:COG0784     1 PPLGGKRILVVDDNPDNRELLRRLLERLGYEVTTAEDGAEALELLRAG-PPDLILLDINMP-GMDGLELLR--RIRALPR 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 880811338 1101 FEG---VIISA-DRTDDMLAAIKANSFSFIAKPVKPLKLRAVLNRV 1142
Cdd:COG0784    77 LPDipiIALTAyADEEDRERALEAGADDYLTKPVDPEELLEALRRL 122

REC

cd00156

phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...

1029-1129

9.66e-14

phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response regulators (PRRs); Two-component systems (TCSs) involving a sensor and a response regulator are used by bacteria to adapt to changing environments. Processes regulated by two-component systems in bacteria include sporulation, pathogenicity, virulence, chemotaxis, and membrane transport. Response regulators (RRs) share the common phosphoacceptor REC domain and different effector/output domains such as DNA, RNA, ligand-binding, protein-binding, or enzymatic domains. Response regulators regulate transcription, post-transcription or post-translation, or have functions such as methylesterases, adenylate or diguanylate cyclase, c-di-GMP-specific phosphodiesterases, histidine kinases, serine/threonine protein kinases, and protein phosphatases, depending on their output domains. The function of some output domains are still unknown. TCSs are found in all three domains of life - bacteria, archaea, and eukaryotes, however, the presence and abundance of particular RRs vary between the lineages. Archaea encode very few RRs with DNA-binding output domains; most are stand-alone REC domains. Among eukaryotes, TCSs are found primarily in protozoa, fungi, algae, and green plants. REC domains function as phosphorylation-mediated switches within RRs, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381085 [Multi-domain] Cd Length: 99 Bit Score: 68.02 E-value: 9.66e-14

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1029 LCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDDwQPDVIFSDYRLDnGRTGLEVLQQCRlRLGDSFEGVIISA 1108
Cdd:cd00156     1 LIVDDDPAIRELLKSLLEREGYEVDTAADGEEALELLREE-RPDLVLLDLMMP-GMDGLELLRKLR-ELPPDIPVIVLTA 77

                          90       100
                  ....*....|....*....|..
gi 880811338 1109 DRT-DDMLAAIKANSFSFIAKP 1129
Cdd:cd00156    78 KADeEDAVRALELGADDYLVKP 99

PAS

COG2202

PAS domain [Signal transduction mechanisms];

626-761

2.29e-09

PAS domain [Signal transduction mechanisms];

Pssm-ID: 441804 [Multi-domain] Cd Length: 258 Bit Score: 59.65 E-value: 2.29e-09

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  626 SRGLLQGAIEHIGQGIAVIDKQMRLVAWNQRYLELFEFPAGLIqVGRPISDVIrhnaeqglcgPGDPEDHVRRRVYHLEQ 705
Cdd:COG2202     9 SERRLRALVESSPDAIIITDLDGRILYVNPAFERLTGYSAEEL-LGKTLRDLL----------PPEDDDEFLELLRAALA 77

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 880811338  706 GTRHTSS---RIRPDGRVIEV----------QGNPMpsgGFVMSFTDITVFRQAEQALKDANESLESRV 761
Cdd:COG2202    78 GGGVWRGelrNRRKDGSLFWVelsispvrdeDGEIT---GFVGIARDITERKRAEEALRESEERLRLLV 143

sensory_box

TIGR00229

PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain ...

633-750

1.11e-07

PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include heme in the oxygen sensor FixL, FAD in the redox potential sensor NifL, and a 4-hydroxycinnamyl chromophore in photoactive yellow protein. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator. [Regulatory functions, Small molecule interactions]

Pssm-ID: 272971 [Multi-domain] Cd Length: 124 Bit Score: 51.52 E-value: 1.11e-07

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   633 AIEHIGQGIAVIDKQMRLVAWNQRYLELFEF-PAGLIqvGRPISDVIrhnaeqglcgPGDPEDHVRRRVYHLEQGTRHTS 711
Cdd:TIGR00229    8 IFESSPDAIIVIDLEGNILYVNPAFEEIFGYsAEELI--GRNVLELI----------PEEDREEVRERIERRLEGEPEPV 75

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*....
gi 880811338   712 S----RIRPDGRVI--EVQGNPMPSGG----FVMSFTDITVFRQAEQAL 750
Cdd:TIGR00229   76 SeerrVRRKDGSEIwvEVSVSPIRTNGgelgVVGIVRDITERKEAEEAL 124

PRK13557

histidine kinase; Provisional

933-1140

8.14e-06

histidine kinase; Provisional

Pssm-ID: 237425 [Multi-domain] Cd Length: 540 Bit Score: 50.05 E-value: 8.14e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  933 VRIDVWDNGTGIDEDKQQEIFEEF--TRGSqvrsDQGLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSITLARAEKVAP 1010
Cdd:PRK13557  325 VSIAVTDTGSGMPPEILARVMDPFftTKEE----GKGTGLGLSMVYGFAKQSGGAVRIYSEVGEGTTVRLYFPASDQAEN 400

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1011 VVQASAPMATSDIEHLKILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDDWQPDVIFSDYRLDNGRTGLEVL 1090
Cdd:PRK13557  401 PEQEPKARAIDRGGTETILIVDDRPDVAELARMILEDFGYRTLVASNGREALEILDSHPEVDLLFTDLIMPGGMNGVMLA 480

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 880811338 1091 QQCRLRL-----------GDSfegviiSADRTDdmlaaIKANSFSFIAKPVKPLKL----RAVLN 1140
Cdd:PRK13557  481 REARRRQpkikvllttgyAEA------SIERTD-----AGGSEFDILNKPYRRAELarrvRMVLD 534

REC

smart00448

cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...

1026-1080

3.49e-05

cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar motors. This domain contains a phosphoacceptor site that is phosphorylated by histidine kinase homologues.

Pssm-ID: 214668 [Multi-domain] Cd Length: 55 Bit Score: 42.17 E-value: 3.49e-05

                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|....*
gi 880811338   1026 LKILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDDwQPDVIFSDYRL 1080
Cdd:smart00448    1 MRILVVDDDPLLRELLKALLEKEGYEVDEATDGEEALELLKEE-KPDLILLDIMM 54

PAS

smart00091

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...

629-684

2.42e-03

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels.

Pssm-ID: 214512 Cd Length: 67 Bit Score: 37.76 E-value: 2.42e-03

                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|....*.
gi 880811338    629 LLQGAIEHIGQGIAVIDKQMRLVAWNQRYLELFEFPAGLIqVGRPISDVIRHNAEQ 684
Cdd:smart00091    2 RLRAILESLPDGIFVLDLDGRILYANPAAEELLGYSPEEL-IGKSLLELIHPEDRE 56

Name

Accession

Description

Interval

E-value

KdpD

COG2205

K+-sensing histidine kinase KdpD [Signal transduction mechanisms];

774-1006

9.32e-61

K+-sensing histidine kinase KdpD [Signal transduction mechanisms];

Pssm-ID: 441807 [Multi-domain] Cd Length: 239 Bit Score: 207.84 E-value: 9.32e-61

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  774 RLVKATQISDQESQSKSRFLAAVSHDLMQPLNAARLFASSLSEVAK--EQEVKQLSSHIESALGAAEDLIGDLLDISRLE 851
Cdd:COG2205     1 ELEEALEELEELERLKSEFLANVSHELRTPLTSILGAAELLLDEEDlsPEERRELLEIIRESAERLLRLIEDLLDLSRLE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  852 SGKLETNIHAIAVHDVLTNLNAEFSALA--RQQKIEFKMIPSSLFIHSDPKLLRRVIQNFLTNAFRYNPEG-KVVLGARR 928
Cdd:COG2205    81 SGKLSLELEPVDLAELLEEAVEELRPLAeeKGIRLELDLPPELPLVYADPELLEQVLANLLDNAIKYSPPGgTITISARR 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 880811338  929 VNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQGLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSITLARAE 1006
Cdd:COG2205   161 EGDGVRISVSDNGPGIPEEELERIFERFYRGDNSRGEGGTGLGLAIVKRIVEAHGGTIWVESEPGGGTTFTVTLPLAE 238

BaeS

COG0642

Signal transduction histidine kinase [Signal transduction mechanisms];

757-1005

3.12e-60

Signal transduction histidine kinase [Signal transduction mechanisms];

Pssm-ID: 440407 [Multi-domain] Cd Length: 328 Bit Score: 209.76 E-value: 3.12e-60

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  757 LESRVHERTQELEKLNHRLVKATQISDQESQSKSRFLAAVSHDLMQPLNAARLFASSLSEvAKEQEVKQLSSHIESALGA 836
Cdd:COG0642    78 LLLLLLLLLLLLLLLLLLLLALLLLLEEANEAKSRFLANVSHELRTPLTAIRGYLELLLE-ELDEEQREYLETILRSADR 156

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  837 AEDLIGDLLDISRLESGKLETNIHAIAVHDVLTNLNAEFSALARQQKIEFKM-IPSSL-FIHSDPKLLRRVIQNFLTNAF 914
Cdd:COG0642   157 LLRLINDLLDLSRLEAGKLELEPEPVDLAELLEEVVELFRPLAEEKGIELELdLPDDLpTVRGDPDRLRQVLLNLLSNAI 236

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  915 RYNPEG-KVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQGLGLGLAISKGIAHVLGHQISMRSWPG 993
Cdd:COG0642   237 KYTPEGgTVTVSVRREGDRVRISVEDTGPGIPPEDLERIFEPFFRTDPSRRGGGTGLGLAIVKRIVELHGGTIEVESEPG 316

                         250
                  ....*....|..
gi 880811338  994 QGSVFSITLARA 1005
Cdd:COG0642   317 KGTTFTVTLPLA 328

PAS_7

pfam12860

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...

634-748

2.56e-53

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya.

Pssm-ID: 432837 [Multi-domain] Cd Length: 115 Bit Score: 181.58 E-value: 2.56e-53

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   634 IEHIGQGIAVIDKQMRLVAWNQRYLELFEFPAGLIQVGRPISDVIRHNAEQGLCGPGDPEDHVRRRVYHLEQGTRHTSSR 713
Cdd:pfam12860    1 LENMSQGLSVFDADLRLVAWNRRYRELLDLPEDLVQVGVPFEEIIRYNAERGEYGPGDVEAHVRRRLAAARAGSPHYFER 80

                           90       100       110
                   ....*....|....*....|....*....|....*
gi 880811338   714 IRPDGRVIEVQGNPMPSGGFVMSFTDITVFRQAEQ 748
Cdd:pfam12860   81 ERPDGRVIEIRGNPLPDGGFVTTFTDITERRRAEE 115

WalK

COG5002

Sensor histidine kinase WalK [Signal transduction mechanisms];

787-1007

2.00e-50

Sensor histidine kinase WalK [Signal transduction mechanisms];

Pssm-ID: 444026 [Multi-domain] Cd Length: 390 Bit Score: 183.60 E-value: 2.00e-50

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  787 QSKSRFLAAVSHDLMQPLNAARLFASSLSEVAKEQEVKQLSShIESALGAAE---DLIGDLLDISRLESGKLETNIHAIA 863
Cdd:COG5002   163 QMRREFVANVSHELRTPLTSIRGYLELLLDGAADDPEERREY-LEIILEEAErlsRLVNDLLDLSRLESGELKLEKEPVD 241

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  864 VHDVLTNLNAEFSALARQQKIEFKM--IPSSLFIHSDPKLLRRVIQNFLTNAFRYNPEG-KVVLGARRVNGQVRIDVWDN 940
Cdd:COG5002   242 LAELLEEVVEELRPLAEEKGIELELdlPEDPLLVLGDPDRLEQVLTNLLDNAIKYTPEGgTITVSLREEDDQVRISVRDT 321

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 880811338  941 GTGIDEDKQQEIFEEFTRGSQVRSDQ--GLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSITLARAEK 1007
Cdd:COG5002   322 GIGIPEEDLPRIFERFYRVDKSRSREtgGTGLGLAIVKHIVEAHGGRIWVESEPGKGTTFTITLPLARE 390

SLC5sbd

cd10322

Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding ...

5-448

2.41e-50

Pssm-ID: 271357 [Multi-domain] Cd Length: 454 Bit Score: 185.07 E-value: 2.41e-50

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338    5 IVIPVSLAYLGVLFLIAWYGDRQVRWLSRW-------RPWIYSLS-IAVYCTSWTFYGTVGQASNNPWSFLPIYLAPILV 76
Cdd:cd10322     1 IDLIIVVVYLALLLGIGLYASKKVKSSEDFflagrslGPWLLAGTlAATWISAGSFVGVAGLAYTYGLSAIWYILGAALG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   77 FTLGWRILARLILIAKREHItsiADFIAARYGkSQGLAVAVTVIAVVGILPYIALQLRGITMGLDIVAPSlaqdfgyqDY 156
Cdd:cd10322    81 ALLLALFLAPRLRRLGKTTI---PETILERYY-SKGLRLLVAIIIIIALIPYLALQLIGGGYILSTLLGI--------PY 148

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  157 HVSWFVVGALAIFTMLFGTRhidntehhRGMMMAVAFESIVKLAAFLIVGLFIMYLA----MSS--DKIDLLDVAASTYE 230
Cdd:cd10322   149 TVAVIIAAVIVILYTVFGGM--------RAVAWTDVIQGIVMLIGVLVAAIFILSKVggggFSAlaAALPALLLALGPGG 220

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  231 SPNIPTLIIHTVLTMLAIVCLPRQFHTMVVENerpqDLHTAR---WLFPLYLILMGLFVLPIAWAGQGLLPSMP-ADTYV 306
Cdd:cd10322   221 GLGWSTILSLILLTGLGVLALPQVFQRILAAK----DEKTARrafLLAGLLLLLIGFLVALIGLAARALFPDLEnPDLAL 296

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  307 ISLPMAEGANHIALLAFLGGTSAASGMVIVSTIALAIMVSNDLVMPLLLRRMRLTQRTH--RHFSGLLLVIrrglillll 384
Cdd:cd10322   297 PTLINSLLPPGLAGLVLAGLLAAAMSTADSLLLAASTLFTRDIYKPLINPKASDKKLLRvsRIAVVVVGVL--------- 367

                         410       420       430       440       450       460
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 880811338  385 lgAWLFYQALDTIhsLSAIGFLSFAAIAQFAPALIGGLYWRPGNRKGVYVGLMVGSVIWLITLM 448
Cdd:cd10322   368 --ALLLALLPPSI--LLLLSLAAGLLAAALFPPLLGGLFWKRATKAGAIAGIIVGLIVTLVWLL 427

COG4251

Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal ...

507-1006

1.03e-46

Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms];

Pssm-ID: 443393 [Multi-domain] Cd Length: 503 Bit Score: 175.74 E-value: 1.03e-46

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  507 LSERLQSAAFVGTPLPENENISLYQSRVTVAELEMLASRFVGRKRAKSALHSYWQQHGQPLLPNQQAPASLIRHAERVLA 586
Cdd:COG4251    11 LLLLLLLLLLLLLLLLVLLLALALLLLLALLVLLLLLIRLLLLLLLSLLALLLLLLLLLLLLLVLAALALLLLLLLLELA 90

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  587 GVFGASSAKLVLTSALQGRNMQLEEVATIVDEASELYDFSRGLLQGAIEHIGQGIAVIDKQMRLVAWNQRYLELFEFPAG 666
Cdd:COG4251    91 LVLLALLLVLLLLLALLLLLALLLLLELLLLLLALLLLLLLLALLLLEELALLRLALALLLLLLLLLLLLLLLLALILAL 170

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  667 LIQVGRPISDVIRHNAEQGLCGPGDPEDHVRRRVYHLEQGTRHTSSRIRPDGRVIEVQGNPMPSGGFVMSFTDITVF--- 743
Cdd:COG4251   171 LLAALAELELLLLLLLVLLLLLLLLLLLLLLLLRLLLELLLLLEAELLLSLGGGLGLLLLLLLLLVLLLLLILLLLLlil 250

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  744 RQAEQALKDANESLESRVHERTQELEKLNHRLvkatqisdqesqskSRFLAAVSHDLMQPLNAARLFASSLSEVAKEQEV 823
Cdd:COG4251   251 VLELLELRLELEELEEELEERTAELERSNEEL--------------EQFAYVASHDLREPLRKISGFSQLLEEDYGDKLD 316

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  824 KQLSSHIESALGAAE---DLIGDLLDISRLESGKLEtnIHAIAVHDVLTNLNAEFSALARQQKIEFKmIPSSLFIHSDPK 900
Cdd:COG4251   317 EEGREYLERIRDAAErmqALIDDLLAYSRVGRQELE--FEPVDLNELLEEVLEDLEPRIEERGAEIE-VGPLPTVRGDPT 393

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  901 LLRRVIQNFLTNAFRYNPEG---KVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQGLGLGLAISKG 977
Cdd:COG4251   394 LLRQVFQNLISNAIKYSRPGeppRIEIGAEREGGEWVFSVRDNGIGIDPEYAEKIFEIFQRLHSRDEYEGTGIGLAIVKK 473

                         490       500
                  ....*....|....*....|....*....
gi 880811338  978 IAHVLGHQISMRSWPGQGSVFSITLARAE 1006
Cdd:COG4251   474 IVERHGGRIWVESEPGEGATFYFTLPKAP 502

NtrB

COG3852

Signal transduction histidine kinase NtrB, nitrogen specific [Signal transduction mechanisms];

626-1010

2.68e-42

Signal transduction histidine kinase NtrB, nitrogen specific [Signal transduction mechanisms];

Pssm-ID: 443061 [Multi-domain] Cd Length: 361 Bit Score: 158.86 E-value: 2.68e-42

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  626 SRGLLQGAIEHIGQGIAVIDKQMRLVAWNQRYLELFEFPAGLIqVGRPISDVIRHNAEqglcgpgdPEDHVRRRVYHLEQ 705
Cdd:COG3852     5 SEELLRAILDSLPDAVIVLDADGRITYVNPAAERLLGLSAEEL-LGRPLAELFPEDSP--------LRELLERALAEGQP 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  706 GTRHTSSRIRPDG--RVIEVQGNPMP----SGGFVMSFTDITVFRQAEQALkdaneslesrvhertQELEKLnhrlvkat 779
Cdd:COG3852    76 VTEREVTLRRKDGeeRPVDVSVSPLRdaegEGGVLLVLRDITERKRLEREL---------------RRAEKL-------- 132

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  780 qisdqesQSKSRFLAAVSHDLMQPLNAARLFASSLSEVAKEQEVKQLSSHIESALGAAEDLIGDLLDISRLESGKLE-TN 858
Cdd:COG3852   133 -------AAVGELAAGLAHEIRNPLTGIRGAAQLLERELPDDELREYTQLIIEEADRLNNLVDRLLSFSRPRPPEREpVN 205

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  859 IHAIaVHDVLTNLNAEFsalARQQKIEFKMIPSSLFIHSDPKLLRRVIQNFLTNAFRYNPEG-----------KVVLGAR 927
Cdd:COG3852   206 LHEV-LERVLELLRAEA---PKNIRIVRDYDPSLPEVLGDPDQLIQVLLNLVRNAAEAMPEGgtitirtrverQVTLGGL 281

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  928 RVNGQVRIDVWDNGTGIDEDKQQEIFEEF--TRgsqvrsDQGLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSITLARA 1005
Cdd:COG3852   282 RPRLYVRIEVIDNGPGIPEEILDRIFEPFftTK------EKGTGLGLAIVQKIVEQHGGTIEVESEPGKGTTFRIYLPLE 355


                  ....*
gi 880811338 1006 EKVAP 1010
Cdd:COG3852   356 QAEEE 360

NtrY

COG5000

Signal transduction histidine kinase NtrY involved in nitrogen fixation and metabolism ...

618-1009

8.16e-40

Signal transduction histidine kinase NtrY involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms];

Pssm-ID: 444024 [Multi-domain] Cd Length: 422 Bit Score: 153.19 E-value: 8.16e-40

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  618 EASELYDFSRGLLQGAIEHIGQGIAVIDKQMRLVAWNQRYLELFEFPAGLIqVGRPISDVIRHNaeqglcgpgDPEDHVR 697
Cdd:COG5000    80 EQREELEERRRYLETILENLPAGVIVLDADGRITLANPAAERLLGIPLEEL-IGKPLEELLPEL---------DLAELLR 149

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  698 RrvyHLEQGTRHTSSRIRPDGRVIEVQGNPMPSGGFVMSFTDITvfrqaeqalkdaneslesrvhertqeleklnhRLVK 777
Cdd:COG5000   150 E---ALERGWQEEIELTRDGRRTLLVRASPLRDDGYVIVFDDIT--------------------------------ELLR 194

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  778 AtqisdQESQSKSRFLAAVSHDLMQPLNAARLFASSLSE------VAKEQEVKQLSSHIESALGAAEDLIGDLLDISRLE 851
Cdd:COG5000   195 A-----ERLAAWGELARRIAHEIKNPLTPIQLSAERLRRkladklEEDREDLERALDTIIRQVDRLKRIVDEFLDFARLP 269

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  852 SGKLEtnihAIAVHDVLTNLNAEFSALARQQKIEFKMI--PSSLFIHSDPKLLRRVIQNFLTNAFRYNPE-GKVVLGARR 928
Cdd:COG5000   270 EPQLE----PVDLNELLREVLALYEPALKEKDIRLELDldPDLPEVLADRDQLEQVLINLLKNAIEAIEEgGEIEVSTRR 345

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  929 VNGQVRIDVWDNGTGIDEDKQQEIFEEF--TRgsqvrsDQGLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSITLARAE 1006
Cdd:COG5000   346 EDGRVRIEVSDNGPGIPEEVLERIFEPFftTK------PKGTGLGLAIVKKIVEEHGGTIELESRPGGGTTFTIRLPLAE 419


                  ...
gi 880811338 1007 KVA 1009
Cdd:COG5000   420 EAE 422

COG4191

Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal ...

694-1005

4.25e-35

Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms];

Pssm-ID: 443345 [Multi-domain] Cd Length: 361 Bit Score: 138.01 E-value: 4.25e-35

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  694 DHVRRRVYHLEQGTRHTSSRIRPDGRVIEVQGNPMPSGGFVMSFTDITVFRQAEQALKDANESLESRVHERTQELEKLnh 773
Cdd:COG4191    49 LLLLLLLLLLLLLLELLLLLLALLGGLLRLLLLLGLLLLLLLEALLLLLLAALDAEENAELEELERDITELERAEEEL-- 126

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  774 rlvKATQisDQESQSkSRF-----LAA-VSHDLMQPLNAARLFASSLSEVAKEQ----EVKQLSSHIESALGAAEDLIGD 843
Cdd:COG4191   127 ---RELQ--EQLVQS-EKLaalgeLAAgIAHEINNPLAAILGNAELLRRRLEDEpdpeELREALERILEGAERAAEIVRS 200

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  844 LLDISRLESGKLE-TNIHAIaVHDVLTNLNAEFsalaRQQKIEFKM-IPSSL-FIHSDPKLLRRVIQNFLTN---AFRYN 917
Cdd:COG4191   201 LRAFSRRDEEEREpVDLNEL-IDEALELLRPRL----KARGIEVELdLPPDLpPVLGDPGQLEQVLLNLLINaidAMEEG 275

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  918 PEGKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEF--TRgsqvRSDQGLGLGLAISKGIAHVLGHQISMRSWPGQG 995
Cdd:COG4191   276 EGGRITISTRREGDYVVISVRDNGPGIPPEVLERIFEPFftTK----PVGKGTGLGLSISYGIVEKHGGRIEVESEPGGG 351

                         330
                  ....*....|
gi 880811338  996 SVFSITLARA 1005
Cdd:COG4191   352 TTFTITLPLA 361

PRK15347

two component system sensor kinase;

749-1019

2.89e-32

two component system sensor kinase;

Pssm-ID: 237951 [Multi-domain] Cd Length: 921 Bit Score: 135.92 E-value: 2.89e-32

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  749 ALKDANESLESRVHERTQELEKlnhrlvkATQISDQESQSKSRFLAAVSHDLMQPLNAArLFASSL---SEVAKEQevKQ 825
Cdd:PRK15347  365 TLNEQYDTLENKVAERTQALAE-------AKQRAEQANKRKSEHLTTISHEIRTPLNGV-LGALELlqnTPLTAEQ--MD 434

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  826 LsshIESALGAAEDL---IGDLLDISRLESGKLETNIHAIAVHDVLTNLNAEFSALARQQKIEFKMIPSS---LFIHSDP 899
Cdd:PRK15347  435 L---ADTARQCTLSLlaiINNLLDFSRIESGQMTLSLEETALLPLLDQAMLTIQGPAQSKSLTLRTFVGAhvpLYLHLDS 511

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  900 KLLRRVIQNFLTNAFRYNPEGKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQvrSDQGLGLGLAISKGIA 979
Cdd:PRK15347  512 LRLRQILVNLLGNAVKFTETGGIRLRVKRHEQQLCFTVEDTGCGIDIQQQQQIFTPFYQADT--HSQGTGLGLTIASSLA 589

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|...
gi 880811338  980 HVLGHQISMRSWPGQGSVFSITLARAEKVAPVV---QASAPMA 1019
Cdd:PRK15347  590 KMMGGELTLFSTPGVGSCFSLVLPLNEYAPPEPlkgELSAPLA 632

HATPase

cd00075

Histidine kinase-like ATPase domain; This superfamily includes the histidine kinase-like ...

902-1002

6.52e-32

Pssm-ID: 340391 [Multi-domain] Cd Length: 102 Bit Score: 120.02 E-value: 6.52e-32

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  902 LRRVIQNFLTNAFRYNPEGKVV-LGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQGLGLGLAISKGIAH 980
Cdd:cd00075     1 LEQVLSNLLDNALKYSPPGGTIeISLRQEGDGVVLEVEDNGPGIPEEDLERIFERFYRGDKSREGGGTGLGLAIVRRIVE 80

                          90       100
                  ....*....|....*....|..
gi 880811338  981 VLGHQISMRSWPGQGSVFSITL 1002
Cdd:cd00075    81 AHGGRITVESEPGGGTTFTVTL 102

HATPase_c

smart00387

Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.

898-1002

7.30e-30

Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.

Pssm-ID: 214643 [Multi-domain] Cd Length: 111 Bit Score: 114.67 E-value: 7.30e-30

                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338    898 DPKLLRRVIQNFLTNAFRYNPE-GKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSD-QGLGLGLAIS 975
Cdd:smart00387    2 DPDRLRQVLSNLLDNAIKYTPEgGRITVTLERDGDHVEITVEDNGPGIPPEDLEKIFEPFFRTDKRSRKiGGTGLGLSIV 81

                            90       100
                    ....*....|....*....|....*..
gi 880811338    976 KGIAHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:smart00387   82 KKLVELHGGEISVESEPGGGTTFTITL 108

PRK11466

hybrid sensory histidine kinase TorS; Provisional

743-1142

5.29e-29

hybrid sensory histidine kinase TorS; Provisional

Pssm-ID: 236914 [Multi-domain] Cd Length: 914 Bit Score: 125.40 E-value: 5.29e-29

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  743 FRQAEQALKDANESLESRVHERTQELEKL--NHRLVKATqiSDQESQSKSRFLAAVSHDLMQPLNA----ARLFASSLSE 816
Cdd:PRK11466  398 FRSNVHALNRHREQLAAQVKARTAELQELviEHRQARAE--AEKASQAKSAFLAAMSHEIRTPLYGilgtAQLLADNPAL 475

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  817 VAKEQEVKQLSSHIESALGaaedLIGDLLDISRLESGKletniHAIAVHD-------VLTNLNAEFSALARQQKIEF--- 886
Cdd:PRK11466  476 NAQRDDLRAITDSGESLLT----ILNDILDYSAIEAGG-----KNVSVSDepfeprpLLESTLQLMSGRVKGRPIRLatd 546

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  887 --KMIPSSLfiHSDPKLLRRVIQNFLTNAFRYNPEGKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRS 964
Cdd:PRK11466  547 iaDDLPTAL--MGDPRRIRQVITNLLSNALRFTDEGSIVLRSRTDGEQWLVEVEDSGCGIDPAKLAEIFQPFVQVSGKRG 624

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  965 dqGLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSITLARAEKVAPVVQASAPMATSDIEHLkILCVDNEREILVGMENL 1044
Cdd:PRK11466  625 --GTGLGLTISSRLAQAMGGELSATSTPEVGSCFCLRLPLRVATAPVPKTVNQAVRLDGLRL-LLIEDNPLTQRITAEML 701

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1045 IGRwGCEVKTAVDLVESLKCLDDDWQPDVIFSDYRLDNgRTGLEVLQQCrLRLGDSFEGVIISADRTDDMLAAIKANSF- 1123
Cdd:PRK11466  702 NTS-GAQVVAVGNAAQALETLQNSEPFAAALVDFDLPD-YDGITLARQL-AQQYPSLVLIGFSAHVIDETLRQRTSSLFr 778

                         410
                  ....*....|....*....
gi 880811338 1124 SFIAKPVKplklRAVLNRV 1142
Cdd:PRK11466  779 GIIPKPVP----REVLGQL 793

PRK09303

histidine kinase;

766-1002

1.29e-28

histidine kinase;

Pssm-ID: 236462 [Multi-domain] Cd Length: 380 Bit Score: 119.29 E-value: 1.29e-28

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  766 QELEKLNHRLvkatqisdqesQSKSRFLAAVSHDLMQPLNAARLFASSL-------SEVAKEQEVKQLSSHIESALGAAE 838
Cdd:PRK09303  139 QENETLLEQL-----------KFKDRVLAMLAHDLRTPLTAASLALETLelgqideDTELKPALIEQLQDQARRQLEEIE 207

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  839 DLIGDLLDISRLESGKLETNihaiAVHDVLTNLNAEFSA------LARQQKIEfKMIPSSL-FIHSDPKLLRRVIQNFLT 911
Cdd:PRK09303  208 RLITDLLEVGRTRWEALRFN----PQKLDLGSLCQEVILelekrwLAKSLEIQ-TDIPSDLpSVYADQERIRQVLLNLLD 282

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  912 NAFRYNPE-GKVVLGA-RRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQGLGLGLAISKGIAHVLGHQISMR 989
Cdd:PRK09303  283 NAIKYTPEgGTITLSMlHRTTQKVQVSICDTGPGIPEEEQERIFEDRVRLPRDEGTEGYGIGLSVCRRIVRVHYGQIWVD 362

                         250
                  ....*....|...
gi 880811338  990 SWPGQGSVFSITL 1002
Cdd:PRK09303  363 SEPGQGSCFHFTL 375

PRK09959

acid-sensing system histidine kinase EvgS;

767-1094

1.32e-28

acid-sensing system histidine kinase EvgS;

Pssm-ID: 182169 [Multi-domain] Cd Length: 1197 Bit Score: 124.85 E-value: 1.32e-28

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  767 ELEKLNHRLVKATQISDQESQSKSRFLAAVSHDLMQPLNAARLFASSLSE--VAKEQEVKQLS---SHIESALGaaedLI 841
Cdd:PRK09959  690 ETRDLIHALEVERNKAINATVAKSQFLATMSHEIRTPISSIMGFLELLSGsgLSKEQRVEAISlayATGQSLLG----LI 765

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  842 GDLLDISRLESGKLETNIHAIAVHDVLTNLNAEFSALARQQKIEFK---MIPSSLFIHSDPKLLRRVIQNFLTNAFRYNP 918
Cdd:PRK09959  766 GEILDVDKIESGNYQLQPQWVDIPTLVQNTCHSFGAIAASKSIALScssTFPDHYLVKIDPQAFKQVLSNLLSNALKFTT 845

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  919 EGKVVLGARRVN-----GQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQGLGLGLAISKGIAHVLGHQISMRSWPG 993
Cdd:PRK09959  846 EGAVKITTSLGHiddnhAVIKMTIMDSGSGLSQEEQQQLFKRYSQTSAGRQQTGSGLGLMICKELIKNMQGDLSLESHPG 925

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  994 QGSVFSITLARA--EKVApVVQASAPMATSDIEHLKILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDDwQP 1071
Cdd:PRK09959  926 IGTTFTITIPVEisQQVA-TVEAKAEQPITLPEKLSILIADDHPTNRLLLKRQLNLLGYDVDEATDGVQALHKVSMQ-HY 1003

                         330       340
                  ....*....|....*....|...
gi 880811338 1072 DVIFSDYRLDNgRTGLEVLQQCR 1094
Cdd:PRK09959 1004 DLLITDVNMPN-MDGFELTRKLR 1025

PRK11091

aerobic respiration control sensor protein ArcB; Provisional

786-1141

6.97e-28

aerobic respiration control sensor protein ArcB; Provisional

Pssm-ID: 236842 [Multi-domain] Cd Length: 779 Bit Score: 121.59 E-value: 6.97e-28

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  786 SQSKSRFLAAVSHDLMQPLNA----ARLFASSlsEVAKEQEvKQLSS-HIeSA--LGaaeDLIGDLLDISRLESGKLETN 858
Cdd:PRK11091  280 SRDKTTFISTISHELRTPLNGivglSRILLDT--ELTAEQR-KYLKTiHV-SAitLG---NIFNDIIDMDKMERRKLQLD 352

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  859 IHAIAVHDVLTNLNaEFSALARQQK-IEFKMIPSS---LFIHSDPKLLRRVIQNFLTNAFRYNPEGKVVLGARRVNGQV- 933
Cdd:PRK11091  353 NQPIDFTDFLADLE-NLSGLQAEQKgLRFDLEPLLplpHKVITDGTRLRQILWNLISNAVKFTQQGGVTVRVRYEEGDMl 431

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  934 RIDVWDNGTGIDEDKQQEIFEEFTrgsQVRSDQ------GLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSITLaraek 1007
Cdd:PRK11091  432 TFEVEDSGIGIPEDELDKIFAMYY---QVKDSHggkpatGTGIGLAVSKRLAQAMGGDITVTSEEGKGSCFTLTI----- 503

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1008 VAPVV--QASAPMATSDIE--HLKILCV-DNEREILVGmENLIGRWGCEVKTAVDLVESLKCLDDDwQPDVIFSDYRLDN 1082
Cdd:PRK11091  504 HAPAVaeEVEDAFDEDDMPlpALNILLVeDIELNVIVA-RSVLEKLGNSVDVAMTGKEALEMFDPD-EYDLVLLDIQLPD 581

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 880811338 1083 gRTGLEVLQQCRLRLGdsfegviisadrTDDM--LAAIKANSFS------------FIAKPVKPLKLRAVLNR 1141
Cdd:PRK11091  582 -MTGLDIARELRERYP------------REDLppLVALTANVLKdkkeyldagmddVLSKPLSVPALTAMIKK 641

KinE

COG5809

Sporulation sensor histidine kinase E [Cell cycle control, cell division, chromosome ...

633-1002

6.23e-27

Sporulation sensor histidine kinase E [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];

Pssm-ID: 444511 [Multi-domain] Cd Length: 489 Bit Score: 116.23 E-value: 6.23e-27

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  633 AIEHIGQGIAVIDKQMRLVAWNQRYLELFEFPAGLIqVGRPISDVIRHNAEQGLCgpgdpeDHVRRRVYHLEQGTRHTSS 712
Cdd:COG5809   146 IFNHSPDGIIVTDLDGRIIYANPAACKLLGISIEEL-IGKSILELIHSDDQENVA------AFISQLLKDGGIAQGEVRF 218

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  713 rIRPDGRVIEVQGNPMPS------GGFVMSFTDITVFRQAEQALKDAneslesrvhertqelEKLNhrLVkatqisdqes 786
Cdd:COG5809   219 -WTKDGRWRLLEASGAPIkkngevDGIVIIFRDITERKKLEELLRKS---------------EKLS--VV---------- 270

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  787 qskSRFLAAVSHDLMQPLNAARLFASSLSEVAKEQEvKQLSSHIESALGAAEDLIGDLLDISRLESGKLET-NIHAIaVH 865
Cdd:COG5809   271 ---GELAAGIAHEIRNPLTSLKGFIQLLKDTIDEEQ-KTYLDIMLSELDRIESIISEFLVLAKPQAIKYEPkDLNTL-IE 345

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  866 DVLTNLNAEfsALARQQKIEFKM---IPSslfIHSDPKLLRRVIQNFLTNAFRYNPE-GKVVLGARRV-NGQVRIDVWDN 940
Cdd:COG5809   346 EVIPLLQPQ--ALLKNVQIELELeddIPD---ILGDENQLKQVFINLLKNAIEAMPEgGNITIETKAEdDDKVVISVTDE 420

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 880811338  941 GTGIDEDKQQEIFEEF-TrgsqvRSDQGLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:COG5809   421 GCGIPEERLKKLGEPFyT-----TKEKGTGLGLMVSYKIIEEHGGKITVESEVGKGTTFSITL 478

PRK10490

sensor protein KdpD; Provisional

787-1002

4.19e-26

sensor protein KdpD; Provisional

Pssm-ID: 236701 [Multi-domain] Cd Length: 895 Bit Score: 116.29 E-value: 4.19e-26

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  787 QSKSRFLAAVSHDLMQPLNAarLFASS---LSEVAKE-----QEVKQLSSHIESALgaaeDLIGDLLDISRLESGKLETN 858
Cdd:PRK10490  662 QLRNALLAALSHDLRTPLTV--LFGQAeilTLDLASEgsphaRQASEIRQQVLNTT----RLVNNLLDMARIQSGGFNLR 735

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  859 IHAIAVHDVLTNLNAEFSALARQQKIEFKMIPSSLFIHSDPKLLRRVIQNFLTNAFRY-NPEGKVVLGARRVNGQVRIDV 937
Cdd:PRK10490  736 KEWLTLEEVVGSALQMLEPGLSGHPINLSLPEPLTLIHVDGPLFERVLINLLENAVKYaGAQAEIGIDAHVEGERLQLDV 815

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 880811338  938 WDNGTGIDEDKQQEIFEEFTRGSQVRSDQGLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:PRK10490  816 WDNGPGIPPGQEQLIFDKFARGNKESAIPGVGLGLAICRAIVEVHGGTIWAENRPEGGACFRVTL 880

HATPase_EvgS-ArcB-TorS-like

cd16922

Histidine kinase-like ATPase domain of two-component sensor histidine kinases, many are hybrid ...

902-1002

1.29e-25

Histidine kinase-like ATPase domain of two-component sensor histidine kinases, many are hybrid sensor histidine kinases, similar to Escherichia coli EvgS, ArcB, TorS, BarA, RcsC; This family contains the histidine kinase-like ATPase (HATPase) domains of various two-component hybrid sensor histidine kinases (HKs), including the following Escherichia coli HKs: EvgS, a HK of the EvgS-EvgA two-component system (TCS) that confers acid resistance; ArcB, a HK of the ArcB-ArcA TCS that modulates the expression of numerous genes in response to respiratory growth conditions; TorS, a HK of the TorS-TorR TCS which is involved in the anaerobic utilization of trimethylamine-N-oxide; BarA, a HK of the BarA-UvrY TCS involved in the regulation of carbon metabolism; and RcsC, a HK of the RcsB-RcsC TCS which regulates the expression of the capsule operon and of the cell division gene ftsZ. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA), with most having accessory sensor domain(s) such as GAF, PAS and CHASE; many are hybrid sensor histidine kinases as they also contain a REC signal receiver domain.

Pssm-ID: 340399 [Multi-domain] Cd Length: 110 Bit Score: 102.19 E-value: 1.29e-25

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  902 LRRVIQNFLTNAFRYNPEGKVVLGARRVN-----GQVRIDVWDNGTGIDEDKQQEIFEEFTR--GSQVRSDQGLGLGLAI 974
Cdd:cd16922     1 LRQILLNLLGNAIKFTEEGEVTLRVSLEEeeedgVQLRFSVEDTGIGIPEEQQARLFEPFSQadSSTTRKYGGTGLGLAI 80

                          90       100
                  ....*....|....*....|....*...
gi 880811338  975 SKGIAHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:cd16922    81 SKKLVELMGGDISVESEPGQGSTFTFTL 108

PRK10604

sensor protein RstB; Provisional

745-1019

1.23e-24

sensor protein RstB; Provisional

Pssm-ID: 236724 [Multi-domain] Cd Length: 433 Bit Score: 108.54 E-value: 1.23e-24

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  745 QAEQALKDANesLESRVH-ERTQELEKLNhrlVKATQISDQESQ---SKSRFLAAVSHDLMQPLnaARL---FASSLSEV 817
Cdd:PRK10604  169 AAAQRLGDGH--LAERIHfDEGSSLERLG---VAFNQMADNINAliaSKKQLIDGIAHELRTPL--VRLryrLEMSDNLS 241

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  818 AKEQEVkqlsshIESALGAAEDLIGDLLDISRLESGKLETNIHAIAVHDVLTNLNAEFSALARQQKIEFKMIPSSLFIHS 897
Cdd:PRK10604  242 AAESQA------LNRDIGQLEALIEELLTYARLDRPQNELHLSEPDLPAWLSTHLADIQAVTPEKTVRLDTPHQGDYGAL 315

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  898 DPKLLRRVIQNFLTNAFRYNpEGKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTR--GSQVRSDQGLGLGLAIS 975
Cdd:PRK10604  316 DMRLMERVLDNLLNNALRYA-HSRVRVSLLLDGNQACLIVEDDGPGIPPEERERVFEPFVRldPSRDRATGGCGLGLAIV 394

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....
gi 880811338  976 KGIAHVLGHQISMRSWPGQGSVFSITLaraekvaPVVQASAPMA 1019
Cdd:PRK10604  395 HSIALAMGGSVNCDESELGGARFSFSW-------PVWHNLPQFT 431

KinA

COG5805

Sporulation sensor histidine kinase A (Stage II sporulation protein SpoIIF/SpoIIJ) [Cell cycle ...

626-1002

1.61e-24

Sporulation sensor histidine kinase A (Stage II sporulation protein SpoIIF/SpoIIJ) [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];

Pssm-ID: 444507 [Multi-domain] Cd Length: 496 Bit Score: 109.05 E-value: 1.61e-24

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  626 SRGLLQGAIEHIGQGIAVIDKQMRLVAWNQRYLELFEFPAGLIqVGRPISDV------------IRHNAEQGLcgpgdpE 693
Cdd:COG5805   155 QEERLQTLIENSPDLICVIDTDGRILFINESIERLFGAPREEL-IGKNLLELlhpcdkeefkerIESITEVWQ------E 227

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  694 DHVRRRVYHLEQGTRHTSSRIRP----DGRVIevqgnpmpsgGFVMSFTDITVFRQAEQALKdaneslesrvhertqELE 769
Cdd:COG5805   228 FIIEREIITKDGRIRYFEAVIVPlidtDGSVK----------GILVILRDITEKKEAEELMA---------------RSE 282

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  770 KLNhrlvkatqISDQesqsksrfLAA-VSHDLMQPLNAARLFASSLSevAKEQEVKQLSSHIESALGAAEDLIGDLLDIS 848
Cdd:COG5805   283 KLS--------IAGQ--------LAAgIAHEIRNPLTSIKGFLQLLQ--PGIEDKEEYFDIMLSELDRIESIISEFLALA 344

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  849 R-LESGKLETNIHAIaVHDVLTNLNAEfsALARQQKIEFKMIPSSLFIHSDPKLLRRVIQNFLTNAFRYNP-EGKVVLGA 926
Cdd:COG5805   345 KpQAVNKEKENINEL-IQDVVTLLETE--AILHNIQIRLELLDEDPFIYCDENQIKQVFINLIKNAIEAMPnGGTITIHT 421

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  927 RRVNGQVRIDVWDNGTGIDEDKQQEIFEEF--TRgsqvrsDQGLGLGLAISKGIAHvlGHQ--ISMRSWPGQGSVFSITL 1002
Cdd:COG5805   422 EEEDNSVIIRVIDEGIGIPEERLKKLGEPFftTK------EKGTGLGLMVSYKIIE--NHNgtIDIDSKVGKGTTFTITL 493

HATPase_c

pfam02518

Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the ...

898-1002

3.54e-24

Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90.

Pssm-ID: 460579 [Multi-domain] Cd Length: 109 Bit Score: 98.21 E-value: 3.54e-24

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   898 DPKLLRRVIQNFLTNAFRYNP---EGKVVLgarRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSqVRSDQGLGLGLAI 974
Cdd:pfam02518    2 DELRLRQVLSNLLDNALKHAAkagEITVTL---SEGGELTLTVEDNGIGIPPEDLPRIFEPFSTAD-KRGGGGTGLGLSI 77

                           90       100
                   ....*....|....*....|....*...
gi 880811338   975 SKGIAHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:pfam02518   78 VRKLVELLGGTITVESEPGGGTTVTLTL 105

PutP

COG0591

Na+/proline symporter [Amino acid transport and metabolism];

4-512

8.79e-24

Na+/proline symporter [Amino acid transport and metabolism];

Pssm-ID: 440356 [Multi-domain] Cd Length: 476 Bit Score: 106.44 E-value: 8.79e-24

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338    4 WIVIpvsLAYLGVLFLIAWYGDRQVRWLSRW-------RPWIYSLSI-AVYCTSWTFYGTVGQASNNPWSFLPIYLAPIL 75
Cdd:COG0591     6 LIII---ILYLLLLLGIGLYASRRTKSLEDYflagrslGWWVLALSLgATWLSAWTFLGVPGLAYAYGLSALWYALGYAL 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   76 VFTLGWRILARLIliaKREHITSIADFIAARYGKsqGLAVAVTVIAVVGILPYIALQLRGITMGLDIVapslaqdFGYqD 155
Cdd:COG0591    83 GALLLALFFAPRL---RRLGALTIPEFLEKRFGR--GLRLLAAIIILLFLLGYLAAQLVALGKLLEAL-------FGI-P 149

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  156 YHVS-WFVVGALAIFTMLFGtrhidntehhrgmMMAVA----FESIVKLAAFLIVGLFIMY----------LAMSSDKID 220
Cdd:COG0591   150 YWLGiLIGALIVLLYTVLGG-------------LRAVAwtdvLQGILMLVGLILLLIVALSalggfgelfaALPAPGLLS 216

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  221 LLDVAASTyespNIPTLIIHTVLTMLAIVCLPRQFH-TMVVENERpqDLHTARWLFPLYLILMGLFVLPIAWAGQGLLPS 299
Cdd:COG0591   217 LFPGLGFT----GWLAFLGLFLAIGLGYFGQPHIVQrFLAAKSEK--EARKAALIGGLLYLLFYLLAALIGLLARALFPD 290

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  300 MPADTYVISLP-MAEGANHIALLAFLGGTSAASGMVIVST--IALAIMVSNDLVMPLLLRRMrlTQRTHRHFSGLLLVIR 376
Cdd:COG0591   291 LPLADPDLALPlLILELLPPGLAGLLLAAILAAAMSTADSqlLAASSVFTRDIYKPFIKPKA--SDKQLLRVSRLAVLVV 368

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  377 RGLilllllgAWLFyqALDTIHSLSAIGFLSFAAIAQ-FAPALIGGLYWRPGNRKGVYVGLMVGSVIWLItlmsqtsmla 455
Cdd:COG0591   369 GLL-------ALLL--ALLFPSSILDLVLLAWGGLGAaLLPPLLLGLFWKRATKAGALAGMIAGLVVVLL---------- 429

                         490       500       510       520       530
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 880811338  456 gdsesnlllWMITPPellsSWNISSSNWGIVLSIVLNTLCYAVVSMSTRPSLSERLQ 512
Cdd:COG0591   430 ---------WKLLGG----PLGPFGWLYPILPGLLVSLLVFVVVSLLTKPPSEEVLE 473

CitA

COG3290

Sensor histidine kinase DipB regulating citrate/malate metabolism [Signal transduction ...

617-1002

1.54e-22

Sensor histidine kinase DipB regulating citrate/malate metabolism [Signal transduction mechanisms];

Pssm-ID: 442519 [Multi-domain] Cd Length: 389 Bit Score: 101.46 E-value: 1.54e-22

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  617 DEASELYDFSRGLLQGAIEhigqGIAVIDKQMRLVAWNQRYLELFefpaGLIQVGRPISDVIRHNAEQGlcgPGDPEDHV 696
Cdd:COG3290    77 EEIARLVEEREAVLESIRE----GVIAVDRDGRITLINDAARRLL----GLDAIGRPIDEVLAEVLETG---ERDEEILL 145

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  697 RRRVYHLeqgtrhTSSRIRPDGRVIevqgnpmpsgGFVMSFTDITVFRQAEQALKDANESLESrvhertqeleklnhrlv 776
Cdd:COG3290   146 NGRVLVV------NRVPIRDDGRVV----------GAVATFRDRTELERLEEELEGVKELAEA----------------- 192

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  777 katqisdqesqsksrfLAAVSHDLMQPLNAArlfaSSLSEVAKEQEvkqlsshiesalgaAEDLIGDLLDISRLESGKLE 856
Cdd:COG3290   193 ----------------LRAQRHDFRNHLHTI----SGLLQLGEYDE--------------ALEYIDEISEELQELIDSLL 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  857 TNIHAIAVHDVLTNlnaeFSALARQQKIEFKMIPSSLF--IHSDPKLLRRVIQNFLTNAFRY-----NPEGKVVLGARRV 929
Cdd:COG3290   239 SRIGNPVLAALLLG----KAARARERGIDLTIDIDSDLpdLPLSDTDLVTILGNLLDNAIEAveklpEEERRVELSIRDD 314

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 880811338  930 NGQVRIDVWDNGTGIDEDKQQEIFEeftRGSQVRSDQGLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:COG3290   315 GDELVIEVEDSGPGIPEELLEKIFE---RGFSTKLGEGRGLGLALVKQIVEKYGGTIEVESEEGEGTVFTVRL 384

HATPase_YcbM-like

cd16947

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

893-1002

1.05e-20

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Bacillus subtilis YcbM; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) such as Bacillus subtilis YcbM, a HK of the two-component system YcbM-YcbL. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA).

Pssm-ID: 340423 [Multi-domain] Cd Length: 125 Bit Score: 88.72 E-value: 1.05e-20

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  893 LFIHSDPKLLRRVIQNFLTNAFRYNPEGKVV-LGARRVNGQVRIDVWDNGTGIDEDKQQEIFEE-FT-RGSQVRSDQGLG 969
Cdd:cd16947    12 IYANANTEALQRILKNLISNAIKYGSDGKFLgMTLREDEKHVYIDIWDKGKGISETEKDHVFERlYTlEDSRNSAKQGNG 91

                          90       100       110
                  ....*....|....*....|....*....|...
gi 880811338  970 LGLAISKGIAHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:cd16947    92 LGLTITKRLAESMGGSIYVNSKPYEKTVFTVTL 124

PRK10841

two-component system sensor histidine kinase RcsC;

780-1000

1.83e-20

two-component system sensor histidine kinase RcsC;

Pssm-ID: 182772 [Multi-domain] Cd Length: 924 Bit Score: 97.74 E-value: 1.83e-20

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  780 QISDQESQSKSRFLAAVSHDLMQPL-----NAARLFASSLSevakeQEVKQLSSHIESALGAAEDLIGDLLDISRLESGK 854
Cdd:PRK10841  438 QAAEQASQSKSMFLATVSHELRTPLygiigNLDLLQTKELP-----KGVDRLVTAMNNSSSLLLKIISDILDFSKIESEQ 512

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  855 LETNIHAIAVHDVLTNLNAEFSALARQQK------IEFKmIPSSLFihSDPKLLRRVIQNFLTNAFRYNPEGKVVLGARR 928
Cdd:PRK10841  513 LKIEPREFSPREVINHITANYLPLVVKKRlglycfIEPD-VPVALN--GDPMRLQQVISNLLSNAIKFTDTGCIVLHVRV 589

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 880811338  929 VNGQVRIDVWDNGTGIDEDKQQEIFEEFTR-GSQV-RSDQGLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSI 1000
Cdd:PRK10841  590 DGDYLSFRVRDTGVGIPAKEVVRLFDPFFQvGTGVqRNFQGTGLGLAICEKLINMMDGDISVDSEPGMGSQFTI 663

PRK11100

sensory histidine kinase CreC; Provisional

798-1005

4.08e-19

sensory histidine kinase CreC; Provisional

Pssm-ID: 236846 [Multi-domain] Cd Length: 475 Bit Score: 91.83 E-value: 4.08e-19

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  798 HDLMQPLNAARLFASSLSEVAKEQEVKQLSSHIESALGAAEDLIGDLLDISRLESGKLETNIHAIAVHDVLTNLNAEFSA 877
Cdd:PRK11100  265 HELKSPLAAIRGAAELLQEDPPPEDRARFTGNILTQSARLQQLIDRLLELARLEQRQELEVLEPVALAALLEELVEAREA 344

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  878 LARQQKIEFKMIPSSLFIHSDPKLLRRVIQNFLTNAFRYNPEGKVV-LGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEF 956
Cdd:PRK11100  345 QAAAKGITLRLRPDDARVLGDPFLLRQALGNLLDNAIDFSPEGGTItLSAEVDGEQVALSVEDQGPGIPDYALPRIFERF 424

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|..
gi 880811338  957 TrgSQVRSDQGL---GLGLAISKGIAHVLGHQISMRSWPGQGSVFSITLARA 1005
Cdd:PRK11100  425 Y--SLPRPANGRkstGLGLAFVREVARLHGGEVTLRNRPEGGVLATLTLPRH 474

PRK11360

two-component system sensor histidine kinase AtoS;

634-1007

1.15e-18

two-component system sensor histidine kinase AtoS;

Pssm-ID: 236901 [Multi-domain] Cd Length: 607 Bit Score: 91.18 E-value: 1.15e-18

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  634 IEHIGQGIAVIDKQMRLVAWNQRYLELFEFPAGLIqVGRPISDVIrhnaeqglcgPGDP------EDHVRRRVYHLEQGT 707
Cdd:PRK11360  268 LESIADGVIAIDRQGKITTMNPAAEVITGLQRHEL-VGKPYSELF----------PPNTpfasplLDTLEHGTEHVDLEI 336

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  708 RHTSSRIRPD-----GRVIEVQGNPMpsgGFVMSFTDITvfrqaeqalkdANESLESRVHeRTQELEKLnhrlvkatqis 782
Cdd:PRK11360  337 SFPGRDRTIElsvstSLLHNTHGEMI---GALVIFSDLT-----------ERKRLQRRVA-RQERLAAL----------- 390

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  783 dqesqskSRFLAAVSHDLMQPLNAARLFAS-------------SLSEVAKEqeVKQLSSHIEsalgaaedligDLLDISR 849
Cdd:PRK11360  391 -------GELVAGVAHEIRNPLTAIRGYVQiwrqqtsdppsqeYLSVVLRE--VDRLNKVID-----------QLLEFSR 450

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  850 -LESGKLETNIHAIaVHDVLtnlnaEFSALARQQ-KIEFKM-----IPSslfIHSDPKLLRRVIQNFLTNAFRYNP-EGK 921
Cdd:PRK11360  451 pRESQWQPVSLNAL-VEEVL-----QLFQTAGVQaRVDFETeldneLPP---IWADPELLKQVLLNILINAVQAISaRGK 521

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  922 VVLGARRV-NGQVRIDVWDNGTGIDEDKQQEIFEEF--TRgsqvrsDQGLGLGLAISKGIAHVLGHQISMRSWPGQGSVF 998
Cdd:PRK11360  522 IRIRTWQYsDGQVAVSIEDNGCGIDPELLKKIFDPFftTK------AKGTGLGLALSQRIINAHGGDIEVESEPGVGTTF 595


                  ....*....
gi 880811338  999 SITLARAEK 1007
Cdd:PRK11360  596 TLYLPINPQ 604

PRK11107

hybrid sensory histidine kinase BarA; Provisional

784-1002

1.64e-17

hybrid sensory histidine kinase BarA; Provisional

Pssm-ID: 236848 [Multi-domain] Cd Length: 919 Bit Score: 88.37 E-value: 1.64e-17

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  784 QE-SQSKSRFLAAVSHDLMQPLNAARLFAsslsevakEQEVK-QLSSH-------IE-SA---LGaaedLIGDLLDISRL 850
Cdd:PRK11107  287 QEaARIKSEFLANMSHELRTPLNGVIGFT--------RQTLKtPLTPTqrdylqtIErSAnnlLA----IINDILDFSKL 354

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  851 ESGKLET-NI----HAIaVHDVLTNLnaefSALARQQKIEFKM-----IPSSLFihSDPKLLRRVIQNFLTNAFRYNPEG 920
Cdd:PRK11107  355 EAGKLVLeNIpfslRET-LDEVVTLL----AHSAHEKGLELTLnidpdVPDNVI--GDPLRLQQIITNLVGNAIKFTESG 427

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  921 ----KVVLGARRvNGQV--RIDVWDNGTGIDEDKQQEIFEEFTRG--SQVRSDQGLGLGLAISKGIAHVLGHQISMRSWP 992
Cdd:PRK11107  428 nidiLVELRALS-NTKVqlEVQIRDTGIGISERQQSQLFQAFRQAdaSISRRHGGTGLGLVITQKLVNEMGGDISFHSQP 506

                         250
                  ....*....|
gi 880811338  993 GQGSVFSITL 1002
Cdd:PRK11107  507 NRGSTFWFHL 516

HATPase_BaeS-like

cd16946

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

898-1002

1.80e-17

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli BasS; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) similar to Escherichia coli BaeS HK of the BaeS/BaeR two-component regulatory system (TCS), which responds to envelope stress. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA), and a HAMP sensory domain.

Pssm-ID: 340422 [Multi-domain] Cd Length: 109 Bit Score: 79.04 E-value: 1.80e-17

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  898 DPKLLRRVIQNFLTNAFRY-NPEGKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTR--GSQVRSDQGLGLGLAI 974
Cdd:cd16946     1 DRDRLQQLFVNLLENSLRYtDTGGKLRIRAAQTPQEVRLDVEDSAPGVSDDQLARLFERFYRveSSRNRASGGSGLGLAI 80

                          90       100
                  ....*....|....*....|....*...
gi 880811338  975 SKGIAHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:cd16946    81 CHNIALAHGGTISAEHSPLGGLRLVLTL 108

envZ

PRK09467

osmolarity sensor protein; Provisional

793-980

4.88e-17

osmolarity sensor protein; Provisional

Pssm-ID: 236531 [Multi-domain] Cd Length: 435 Bit Score: 84.96 E-value: 4.88e-17

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  793 LAAVSHDLMQPLNAARLFASSLSEvakEQEVkqLSSHIESALGAAEDLIGDLLDISRL--ESGKLETNIHAIaVHDVLtn 870
Cdd:PRK09467  233 MAGVSHDLRTPLTRIRLATEMMSE---EDGY--LAESINKDIEECNAIIEQFIDYLRTgqEMPMEMADLNAL-LGEVI-- 304

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  871 lNAEfsaLARQQKIEFKMIPSSLFIHSDPKLLRRVIQNFLTNAFRY-NPEGKVVLGarrVNGQ-VRIDVWDNGTGIDEDK 948
Cdd:PRK09467  305 -AAE---SGYEREIETALQPGPIEVPMNPIAIKRALANLVVNAARYgNGWIKVSSG---TEGKrAWFQVEDDGPGIPPEQ 377

                         170       180       190
                  ....*....|....*....|....*....|....
gi 880811338  949 QQEIFEEFTRGSQVRSDQGLGLGLAISKGI--AH 980
Cdd:PRK09467  378 LKHLFQPFTRGDSARGSSGTGLGLAIVKRIvdQH 411

PRK10755

two-component system sensor histidine kinase PmrB;

750-980

8.09e-17

two-component system sensor histidine kinase PmrB;

Pssm-ID: 236751 [Multi-domain] Cd Length: 356 Bit Score: 83.48 E-value: 8.09e-17

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  750 LKDANESLESR---------VHERTQELE----KLNHRLVKATQISDQESQsksrFLAAVSHDLMQPLNAARLFASsLSE 816
Cdd:PRK10755   89 LAELQKELEARtadnltpiaIHSSTLEIEavtsALNQLVSRLTSTLDQERL----FTADVAHELRTPLAGIRLHLE-LLE 163

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  817 VAKEQEVKQLSSHIESALGAAEDLigdlLDISRLE----SGKLETnihAIAVHDVLTNLNAEFSALA--RQQKIEFKMIP 890
Cdd:PRK10755  164 KQHHIDVAPLIARLDQMMHTVEQL----LQLARAGqsfsSGHYQT---VKLLEDVILPSQDELSEMLeqRQQTLLLPESA 236

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  891 SSLFIHSDPKLLRRVIQNFLTNAFRYNPEG---KVVLGARrvNGQVRIDVWDNGTGIDEDKQQEIFEEFtrgsqVRSDQ- 966
Cdd:PRK10755  237 ADITVQGDATLLRLLLRNLVENAHRYSPEGstiTIKLSQE--DGGAVLAVEDEGPGIDESKCGELSKAF-----VRMDSr 309

                         250
                  ....*....|....*.
gi 880811338  967 --GLGLGLAISKGIAH 980
Cdd:PRK10755  310 ygGIGLGLSIVSRITQ 325

HATPase_TutC-TodS-like

cd16925

Histidine kinase-like ATPase domain of hybrid sensor histidine kinases similar to Pseudomonas ...

898-1002

3.13e-16

Histidine kinase-like ATPase domain of hybrid sensor histidine kinases similar to Pseudomonas putida TodS and Thauera aromatica TutC; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component hybrid sensor histidine kinase (HKs) such Pseudomonas putida TodS HK of the TodS-TodT two-component regulatory system (TCS) which controls the expression of a toluene degradation pathway. Thauera aromatica TutC may be part of a TCS that is involved in anaerobic toluene metabolism. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA), PAS sensor domain(s) and a REC domain.

Pssm-ID: 340402 [Multi-domain] Cd Length: 110 Bit Score: 75.61 E-value: 3.13e-16

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  898 DPKLLRRVIQNFLTNAFRYNPEG---KVVLGARRVNGqVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQ--GLGLGL 972
Cdd:cd16925     1 DAEKYERVVLNLLSNAFKFTPDGgriRCILEKFRLNR-FLLTVSDSGPGIPPNLREEIFERFRQGDGSSTRAhgGTGLGL 79

                          90       100       110
                  ....*....|....*....|....*....|
gi 880811338  973 AISKGIAHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:cd16925    80 SIVKEFVELHGGTVTVSDAPGGGALFQVEL 109

PRK10337

sensor protein QseC; Provisional

791-995

1.45e-15

sensor protein QseC; Provisional

Pssm-ID: 182388 [Multi-domain] Cd Length: 449 Bit Score: 80.85 E-value: 1.45e-15

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  791 RFLAAVSHDLMQPLNAARLFA--SSLS---EVAKEQEVKQLSSHIESAlgaaEDLIGDLLDISRLESGKLETNIHAIAVH 865
Cdd:PRK10337  239 RFTSDAAHELRSPLAALKVQTevAQLSdddPQARKKALLQLHAGIDRA----TRLVDQLLTLSRLDSLDNLQDVAEIPLE 314

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  866 DVLTNLNAEFSALARQQKIEFKM-IPSSLFIHS-DPKLLRRVIQNFLTNAFRYNPEGKVV---LGARrvngqvRIDVWDN 940
Cdd:PRK10337  315 DLLQSAVMDIYHTAQQAGIDVRLtLNAHPVIRTgQPLLLSLLVRNLLDNAIRYSPQGSVVdvtLNAR------NFTVRDN 388

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 880811338  941 GTGIDEDKQQEIFEEFTR--GSQVrsdQGLGLGLAISKGIAHVLGHQISMRSWPGQG 995
Cdd:PRK10337  389 GPGVTPEALARIGERFYRppGQEA---TGSGLGLSIVRRIAKLHGMNVSFGNAPEGG 442

HATPase_FilI-like

cd16921

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

902-1002

2.83e-15

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Methanosaeta harundinacea FilI and some hybrid sensor histidine kinases; This family includes FilI, the histidine kinase (HK) component of FilI-FilRs, a two-component signal transduction system (TCS) of the methanogenic archaeon, Methanosaeta harundinacea, which is involved in regulating methanogenesis. The cytoplasmic HK core consists of a C-terminal HK-like ATPase domain (represented here) and a histidine kinase dimerization and phosphoacceptor domain (HisKA) domain, which, in FilI, are coupled to CHASE, HAMP, PAS, and GAF sensor domains. FilI-FilRs catalyzes the phosphotransfer between FilI (HK) and FilRs (FilR1 and FilR2, response regulators) of the TCS. TCSs are predicted to be of bacterial origin, and acquired by archaea by horizontal gene transfer. This model also includes related HATPase domains such as that of Synechocystis sp. PCC6803 phytochrome-like protein Cph1. Proteins having this HATPase domain and HisKA domain also have accessory sensor domains such as CHASE, GAF, HAMP and PAS; some are hybrid sensor histidine kinases as they also contain a REC signal receiver domain.

Pssm-ID: 340398 [Multi-domain] Cd Length: 105 Bit Score: 72.74 E-value: 2.83e-15

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  902 LRRVIQNFLTNAFRYNPEG---KVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQGLGLGLAISKGI 978
Cdd:cd16921     1 LGQVLTNLLGNAIKFRRPRrppRIEVGAEDVGEEWTFYVRDNGIGIDPEYAEKVFGIFQRLHSREEYEGTGVGLAIVRKI 80

                          90       100
                  ....*....|....*....|....
gi 880811338  979 AHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:cd16921    81 IERHGGRIWLESEPGEGTTFYFTL 104

HATPase_BasS-like

cd16940

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

895-995

4.56e-15

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli BasS; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) similar to Escherichia coli BasS HK of the BasS-BasR two-component regulatory system (TCS). Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA); some contain a HAMP sensory domain, while some an N-terminal two-component sensor kinase domain.

Pssm-ID: 340417 [Multi-domain] Cd Length: 113 Bit Score: 72.44 E-value: 4.56e-15

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  895 IHSDPKLLRRVIQNFLTNAFRYNPEGKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRgSQVRSDQGLGLGLAI 974
Cdd:cd16940     7 VQGDALLLFLLLRNLVDNAVRYSPQGSRVEIKLSADDGAVIRVEDNGPGIDEEELEALFERFYR-SDGQNYGGSGLGLSI 85

                          90       100
                  ....*....|....*....|.
gi 880811338  975 SKGIAHVLGHQISMRSWPGQG 995
Cdd:cd16940    86 VKRIVELHGGQIFLGNAQGGG 106

phoR

PRK11006

phosphate regulon sensor histidine kinase PhoR;

792-1003

5.06e-15

phosphate regulon sensor histidine kinase PhoR;

Pssm-ID: 182895 [Multi-domain] Cd Length: 430 Bit Score: 78.90 E-value: 5.06e-15

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  792 FLAAVSHDLMQPLNAARLFAsslsEVAKEQEV------KQLSSHIESaLGAAEDLIGDLLDISRLESG-KLETNiHAIAV 864
Cdd:PRK11006  207 FFANVSHELRTPLTVLQGYL----EMMQDQPLegalreKALHTMREQ-TQRMEGLVKQLLTLSKIEAApTIDLN-EKVDV 280

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  865 HDVLTNLNAEFSALA-RQQKIEFKmIPSSLFIHSDPKLLRRVIQNFLTNAFRYNPEG-KVVLGARRVNGQVRIDVWDNGT 942
Cdd:PRK11006  281 PMMLRVLEREAQTLSqGKHTITFE-VDNSLKVFGNEDQLRSAISNLVYNAVNHTPEGtHITVRWQRVPQGAEFSVEDNGP 359

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 880811338  943 GIDEDKQQEIFEEFTRGSQVRSDQ--GLGLGLAISKgiaHVLGH---QISMRSWPGQGSVFSITLA 1003
Cdd:PRK11006  360 GIAPEHIPRLTERFYRVDKARSRQtgGSGLGLAIVK---HALSHhdsRLEIESEVGKGTRFSFVLP 422

PRK09835

Cu(+)/Ag(+) sensor histidine kinase;

767-1006

7.73e-15

Cu(+)/Ag(+) sensor histidine kinase;

Pssm-ID: 182101 [Multi-domain] Cd Length: 482 Bit Score: 78.66 E-value: 7.73e-15

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  767 ELEKL----NHRLVKatqISDQESQsKSRFLAAVSHDLMQPL-NAARLFASSLSEVAKEQEVKQ-LSSHIESaLGAAEDL 840
Cdd:PRK09835  240 ELEQLvlsfNHMIER---IEDVFTR-QSNFSADIAHEIRTPItNLITQTEIALSQSRSQKELEDvLYSNLEE-LTRMAKM 314

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  841 IGDLLDISRLESGKLETNIHAIAVHDVLTNLNAEFSALARQQKIEFKMIPSSLFIHSDPKLLRRVIQNFLTNAFRYNPEG 920
Cdd:PRK09835  315 VSDMLFLAQADNNQLIPEKKMLDLADEVGKVFDFFEAWAEERGVELRFVGDPCQVAGDPLMLRRAISNLLSNALRYTPAG 394

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  921 K-VVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTR--GSQVRSDQGLGLGLAISKGIAHVLGHQISMRSWPgQGSV 997
Cdd:PRK09835  395 EaITVRCQEVDHQVQLVVENPGTPIAPEHLPRLFDRFYRvdPSRQRKGEGSGIGLAIVKSIVVAHKGTVAVTSDA-RGTR 473


                  ....*....
gi 880811338  998 FSITLARAE 1006
Cdd:PRK09835  474 FVISLPRLE 482

CheY

COG0784

CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...

1021-1142

1.39e-14

CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator Spo0F [Signal transduction mechanisms];

Pssm-ID: 440547 [Multi-domain] Cd Length: 128 Bit Score: 71.42 E-value: 1.39e-14

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1021 SDIEHLKILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDDwQPDVIFSDYRLDnGRTGLEVLQqcRLRLGDS 1100
Cdd:COG0784     1 PPLGGKRILVVDDNPDNRELLRRLLERLGYEVTTAEDGAEALELLRAG-PPDLILLDINMP-GMDGLELLR--RIRALPR 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 880811338 1101 FEG---VIISA-DRTDDMLAAIKANSFSFIAKPVKPLKLRAVLNRV 1142
Cdd:COG0784    77 LPDipiIALTAyADEEDRERALEAGADDYLTKPVDPEELLEALRRL 122

HATPase_BceS-YxdK-YvcQ-like

cd16948

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

897-1003

1.41e-14

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Bacillus subtilis BceS, YxdK, and Bacillus thuringiensis YvcQ; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) such as Bacillus subtilis BceS and Bacillus thuringiensis YvcQ, the HKs of the two-component regulatory system (TCSs) BceS-BceR and YvcQ-YvcP, repsectively, which are both involved in regulating bacitracin resistance. It also includes the HATPase domain of YxdK, the HK of YxdK-YxdJ TCS involved in sensing antimicrobial compounds.

Pssm-ID: 340424 [Multi-domain] Cd Length: 109 Bit Score: 70.78 E-value: 1.41e-14

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  897 SDPKLLRRVIQNFLTNAFRYNPE-GKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQ-GLGLGLAI 974
Cdd:cd16948     1 TDAKWLSFIIGQIVSNALKYSKQgGKIEIYSETNEQGVVLSIKDFGIGIPEEDLPRVFDKGFTGENGRNFQeSTGMGLYL 80

                          90       100
                  ....*....|....*....|....*....
gi 880811338  975 SKGIAHVLGHQISMRSWPGQGSVFSITLA 1003
Cdd:cd16948    81 VKKLCDKLGHKIDVESEVGEGTTFTITFP 109

HATPase_VanS-like

cd16923

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

902-1002

1.94e-14

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Enterococcus faecium VanS; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) such as Enterococcus faecium VanS HK of the VanS-VanR two-component regulatory system (TCS) which activates the transcription of vanH, vanA and vanX vancomycin resistance genes. It also contains Ecoli YedV and PcoS, probable members of YedW-YedV TCS and PcoS-PcoR TCS, repectively. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA); most also have a HAMP sensor domain.

Pssm-ID: 340400 [Multi-domain] Cd Length: 102 Bit Score: 70.11 E-value: 1.94e-14

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  902 LRRVIQNFLTNAFRYNPEGKVV-LGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQGLGLGLAISKGIAH 980
Cdd:cd16923     1 LQRVFSNLLSNAIKYSPENTRIyITSFLTDDVVNIMFKNPSSHPLDFKLEKLFERFYRGDNSRNTEGAGLGLSIAKAIIE 80

                          90       100
                  ....*....|....*....|..
gi 880811338  981 VLGHQISMRSwPGQGSVFSITL 1002
Cdd:cd16923    81 LHGGSASAEY-DDNHDLFKVRL 101

AtoC

COG2204

DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...

1027-1142

3.78e-14

DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, and a Fis-type DNA-binding domains [Signal transduction mechanisms];

Pssm-ID: 441806 [Multi-domain] Cd Length: 418 Bit Score: 76.16 E-value: 3.78e-14

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1027 KILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDDwQPDVIFSDYRLDnGRTGLEVLQQCRlRLGDSFEGVII 1106
Cdd:COG2204     4 RILVVDDDPDIRRLLKELLERAGYEVETAASGEEALALLREE-PPDLVLLDLRMP-GMDGLELLRELR-ALDPDLPVILL 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 880811338 1107 SADRT-DDMLAAIKANSFSFIAKPVKPLKLRAVLNRV 1142
Cdd:COG2204    81 TGYGDvETAVEAIKAGAFDYLTKPFDLEELLAAVERA 117

HATPase_CpxA-like

cd16949

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

902-1002

6.18e-14

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli CpxA; This family includes the histidine kinase-like ATPase (HATPase) domains of two-component sensor histidine kinase (HKs) similar to Escherichia coli CpxA, HK of the CpxA-CpxR two-component regulatory system (TCS) which may function in acid stress and in cell wall stability. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA) and a HAMP sensor domain; some also contain a CpxA family periplasmic domain.

Pssm-ID: 340425 [Multi-domain] Cd Length: 104 Bit Score: 68.89 E-value: 6.18e-14

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  902 LRRVIQNFLTNAFRYNPEgKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQ--GLGLGLAISKGIA 979
Cdd:cd16949     1 LARALENVLRNALRYSPS-KILLDISQDGDQWTITITDDGPGVPEDQLEQIFLPFYRVDSARDREsgGTGLGLAIAERAI 79

                          90       100
                  ....*....|....*....|...
gi 880811338  980 HVLGHQISMRSWPGQGSVFSITL 1002
Cdd:cd16949    80 EQHGGKIKASNRKPGGLRVRIWL 102

HATPase_AtoS-like

cd16943

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

899-1004

8.27e-14

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli K-12 AtoS; This family includes the histidine kinase-like ATPase (HATPase) domains of various histidine kinases (HKs) of two-component signal transduction systems (TCSs) such as Escherichia coli AtoS, an HK of the AtoS-AtoC TCS. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA); some have accessory domains such as HAMP or PAS sensor domains or CBS-pair domains.

Pssm-ID: 340419 [Multi-domain] Cd Length: 105 Bit Score: 68.60 E-value: 8.27e-14

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  899 PKLLRRVIQNFLTNAFR-YNPEGKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRsdQGLGLGLAISKG 977
Cdd:cd16943     1 PSQLNQVLLNLLVNAAQaMEGRGRITIRTWAHVDQVLIEVEDTGSGIDPEILGRIFDPFFTTKPVG--EGTGLGLSLSYR 78

                          90       100
                  ....*....|....*....|....*..
gi 880811338  978 IAHVLGHQISMRSWPGQGSVFSITLAR 1004
Cdd:cd16943    79 IIQKHGGTIRVASVPGGGTRFTIILPI 105

REC

cd00156

phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...

1029-1129

9.66e-14

Pssm-ID: 381085 [Multi-domain] Cd Length: 99 Bit Score: 68.02 E-value: 9.66e-14

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1029 LCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDDwQPDVIFSDYRLDnGRTGLEVLQQCRlRLGDSFEGVIISA 1108
Cdd:cd00156     1 LIVDDDPAIRELLKSLLEREGYEVDTAADGEEALELLREE-RPDLVLLDLMMP-GMDGLELLRKLR-ELPPDIPVIVLTA 77

                          90       100
                  ....*....|....*....|..
gi 880811338 1109 DRT-DDMLAAIKANSFSFIAKP 1129
Cdd:cd00156    78 KADeEDAVRALELGADDYLVKP 99

HATPase_EnvZ-like

cd16950

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

902-995

1.37e-13

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli EnvZ and Pseudomonas aeruginosa BfmS; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) such as Escherichia coli EnvZ of the EnvZ-OmpR two-component regulatory system (TCS), which functions in osmoregulation. It also contains the HATPase domain of Pseudomonas aeruginosa BfmS, the HK of the BfmSR TCS, which functions in the regulation of the rhl quorum-sensing system and bacterial virulence in P. aeruginosa. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA) and a HAMP sensor domain; some also contain a periplasmic domain.

Pssm-ID: 340426 [Multi-domain] Cd Length: 101 Bit Score: 67.86 E-value: 1.37e-13

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  902 LRRVIQNFLTNAFRYNpEGKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQGLGLGLAISKGIAHV 981
Cdd:cd16950     1 LKRVLSNLVDNALRYG-GGWVEVSSDGEGNRTRIQVLDNGPGIAPEEVDELFQPFYRGDNARGTSGTGLGLAIVQRISDA 79

                          90
                  ....*....|....
gi 880811338  982 LGHQISMRSWPGQG 995
Cdd:cd16950    80 HGGSLTLANRAGGG 93

HATPase_RstB-like

cd16939

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

902-1004

3.87e-13

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Salmonella typhimurium RstB; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) such as Salmonella typhimurium RstB HK of the RstA-RstB two-component regulatory system (TCS), which regulates expression of the constituents participating in pyrimidine metabolism and iron acquisition, and may be required for regulation of Salmonella motility and invasion. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA), and a HAMP sensor domain.

Pssm-ID: 340416 [Multi-domain] Cd Length: 104 Bit Score: 66.68 E-value: 3.87e-13

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  902 LRRVIQNFLTNAFRYnPEGKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTR--GSQVRSDQGLGLGLAISKGIA 979
Cdd:cd16939     1 MARALDNLLRNALRY-AHRTVRIALLVSGGRLTLIVEDDGPGIPAAARERVFEPFVRldPSRDRATGGFGLGLAIVHRVA 79

                          90       100
                  ....*....|....*....|....*
gi 880811338  980 HVLGHQISMRSWPGQGSVFSITLAR 1004
Cdd:cd16939    80 LWHGGHVECDDSELGGACFRLTWPR 104

PRK13837

two-component system VirA-like sensor kinase;

719-1014

4.46e-13

two-component system VirA-like sensor kinase;

Pssm-ID: 237526 [Multi-domain] Cd Length: 828 Bit Score: 73.94 E-value: 4.46e-13

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  719 RVIEVQGNPMPSGGFVMSFTDITVFRQAEQALKDANEslesRVHERtQELEKLNHRLVKAtqisdQESQSKSRFLAAVSH 798
Cdd:PRK13837  390 RIVALLGLGRQRYGLRPPAGELQLLELALDCLAHAIE----RRRLE-TERDALERRLEHA-----RRLEAVGTLASGIAH 459

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  799 DLMQPLNAARLFAS-SLSEVAKEQEVKQLSSHIESALGAAEDLIGDLLDISRLESGKLETNIHAIAVHDVLTNLNAefsA 877
Cdd:PRK13837  460 NFNNILGAILGYAEmALNKLARHSRAARYIDEIISAGARARLIIDQILAFGRKGERNTKPFDLSELVTEIAPLLRV---S 536

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  878 LARQQKIEFKMIPSSLFIHSDPKLLRRVIQNFLTNAFR-YNPEGKVVLGARRVNGQ---------------VRIDVWDNG 941
Cdd:PRK13837  537 LPPGVELDFDQDQEPAVVEGNPAELQQVLMNLCSNAAQaMDGAGRVDISLSRAKLRapkvlshgvlppgryVLLRVSDTG 616

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 880811338  942 TGIDEDKQQEIFEEF--TRGsqvrsdQGLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSITLARAEKVAPVVQA 1014
Cdd:PRK13837  617 AGIDEAVLPHIFEPFftTRA------GGTGLGLATVHGIVSAHAGYIDVQSTVGRGTRFDVYLPPSSKVPVAPQA 685

HATPase_HupT_MifS-like

cd16976

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

902-1002

9.99e-13

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Rhodobacter capsulatus HupT and Pseudomonas aeruginosa MifS; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) such as Rhodobacter capsulatus HupT of the HupT-HupR two-component regulatory system (TCS), which regulates the synthesis of HupSL, a membrane bound [NiFe]hydrogenase. It also contains the HATPase domain of Pseudomonas aeruginosa MifS, the HK of the MifS-MifR TCS, which may be involved in sensing alpha-ketoglutarate and regulating its transport and subsequent metabolism. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA); some also have a C-terminal PAS sensor domain.

Pssm-ID: 340435 [Multi-domain] Cd Length: 102 Bit Score: 65.17 E-value: 9.99e-13

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  902 LRRVIQNFLTNAF---RYNPEGKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVrsDQGLGLGLAISKGI 978
Cdd:cd16976     1 IQQVLMNLLQNALdamGKVENPRIRIAARRLGGRLVLVVRDNGPGIAEEHLSRVFDPFFTTKPV--GKGTGLGLSISYGI 78

                          90       100
                  ....*....|....*....|....
gi 880811338  979 AHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:cd16976    79 VEEHGGRLSVANEEGAGARFTFDL 102

cpxA

PRK09470

envelope stress sensor histidine kinase CpxA;

743-974

1.09e-12

envelope stress sensor histidine kinase CpxA;

Pssm-ID: 236532 [Multi-domain] Cd Length: 461 Bit Score: 71.50 E-value: 1.09e-12

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  743 FRQAEQALKDANESLEsrvhertqeleklnhRLVKATQisdqesqsksRFLAAVSHDLMQPLNAARLfASSLSEvAKEQE 822
Cdd:PRK09470  222 FRQAGASFNQMVTALE---------------RMMTSQQ----------RLLSDISHELRTPLTRLQL-ATALLR-RRQGE 274

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  823 VKQLSsHIESALGAAEDLIGDLLDISRLE-SGKLETNIHAIAV--HDVLTNlnAEFSALARQQKIEFKMIPSSLFIHSDP 899
Cdd:PRK09470  275 SKELE-RIETEAQRLDSMINDLLVLSRNQqKNHLERETFKANSlwSEVLED--AKFEAEQMGKSLTVSAPPGPWPINGNP 351

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 880811338  900 KLLRRVIQNFLTNAFRYNpEGKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQ--GLGLGLAI 974
Cdd:PRK09470  352 NALASALENIVRNALRYS-HTKIEVAFSVDKDGLTITVDDDGPGVPEEEREQIFRPFYRVDEARDREsgGTGLGLAI 427

PRK10364

two-component system sensor histidine kinase ZraS;

794-1002

3.00e-12

two-component system sensor histidine kinase ZraS;

Pssm-ID: 236674 [Multi-domain] Cd Length: 457 Bit Score: 70.20 E-value: 3.00e-12

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  794 AAVSHDLMQPLNAARLFASSLSEVAKEQ-EVKQLSSHIESALGAAEDLIGDLLDISRlesgKLETNIHAIAVHDVLTNLN 872
Cdd:PRK10364  242 AGVAHEIRNPLSSIKGLAKYFAERAPAGgEAHQLAQVMAKEADRLNRVVSELLELVK----PTHLALQAVDLNDLINHSL 317

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  873 AEFSALARQQKIEFKMIPSSLF--IHSDPKLLRRVIQNFLTNAFRYNPEGKVV-LGARRVNGQVRIDVWDNGTGIDEDKQ 949
Cdd:PRK10364  318 QLVSQDANSREIQLRFTANDTLpeIQADPDRLTQVLLNLYLNAIQAIGQHGVIsVTASESGAGVKISVTDSGKGIAADQL 397

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 880811338  950 QEIFEEF--TRGsqvrsdQGLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:PRK10364  398 EAIFTPYftTKA------EGTGLGLAVVHNIVEQHGGTIQVASQEGKGATFTLWL 446

RpfG

COG3437

Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...

1021-1142

5.25e-12

Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains [Signal transduction mechanisms];

Pssm-ID: 442663 [Multi-domain] Cd Length: 224 Bit Score: 66.73 E-value: 5.25e-12

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1021 SDIEHLKILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLdDDWQPDVIFSDYRLDnGRTGLEVLQQCRLRLGDS 1100
Cdd:COG3437     2 RTGQAPTVLIVDDDPENLELLRQLLRTLGYDVVTAESGEEALELL-LEAPPDLILLDVRMP-GMDGFELLRLLRADPSTR 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 880811338 1101 FEGVII--SADRTDDMLAAIKANSFSFIAKPVKPLKLRAVLNRV 1142
Cdd:COG3437    80 DIPVIFltALADPEDRERALEAGADDYLTKPFDPEELLARVRNA 123

HisKA

pfam00512

His Kinase A (phospho-acceptor) domain; dimerization and phospho-acceptor domain of histidine ...

788-853

2.12e-11

His Kinase A (phospho-acceptor) domain; dimerization and phospho-acceptor domain of histidine kinases.

Pssm-ID: 459839 [Multi-domain] Cd Length: 66 Bit Score: 60.30 E-value: 2.12e-11

                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 880811338   788 SKSRFLAAVSHDLMQPLNAARLFASSLSEVAKEQEVKQLSSHIESALGAAEDLIGDLLDISRLESG 853
Cdd:pfam00512    1 AKSEFLANLSHELRTPLTAIRGYLELLRDEKLDEEQREYLETILRSAERLLRLINDLLDLSRIEAG 66

COG4192

Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal ...

742-990

6.13e-11

Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms];

Pssm-ID: 443346 [Multi-domain] Cd Length: 640 Bit Score: 66.63 E-value: 6.13e-11

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  742 VFR-QAEQALKDANESLESRvHERTQELEKLNHRLVKATQ--ISDQESQSksrflaaVSHDLMQPLNAARLFASSLSEVA 818
Cdd:COG4192   391 VFRdQAIEKTQELETEIEER-KRIEKNLRQTQDELIQAAKmaVVGQTMTS-------LAHELNQPLNAMSMYLFSAKKAL 462

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  819 KEQEVKQLSSHIESALGAAE--DLIgdlldISRLE--SGKLETNIHAIAVHDVLTNLNAEFSALARQQKIEFKmIPSSLF 894
Cdd:COG4192   463 EQENYAQLPTSLDKIEGLIErmDKI-----IKSLRqfSRKSDTPLQPVDLRQVIEQAWELVESRAKPQQITLH-IPDDLM 536

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  895 IHSDPKLLRRVIQNFLTNAFRYNPEGKVV-LGARRVNGQVRIDVWDNGTGIDEdkQQEIFEEFTRGSQVrsdqGLGLGLA 973
Cdd:COG4192   537 VQGDQVLLEQVLVNLLVNALDAVATQPQIsVDLLSNAENLRVAISDNGNGWPL--VDKLFTPFTTTKEV----GLGLGLS 610

                         250
                  ....*....|....*..
gi 880811338  974 ISKGIAHVLGHQISMRS 990
Cdd:COG4192   611 ICRSIMQQFGGDLYLAS 627

PleD

COG3706

Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...

1025-1142

7.40e-11

Two-component response regulator, PleD family, consists of two REC domains and a diguanylate cyclase (GGDEF) domain [Signal transduction mechanisms, Transcription];

Pssm-ID: 442920 [Multi-domain] Cd Length: 179 Bit Score: 62.23 E-value: 7.40e-11

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1025 HLKILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDDwQPDVIFSDYRLDnGRTGLEVLQqcRLRLGDSFEGV 1104
Cdd:COG3706     1 PARILVVDDDPTNRKLLRRLLEAAGYEVVEAADGEEALELLQEH-RPDLILLDLEMP-DMDGLELCR--RLRADPRTADI 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 880811338 1105 ---IISA-DRTDDMLAAIKANSFSFIAKPVKPLKLRAVLNRV 1142
Cdd:COG3706    77 piiFLTAlDDEEDRARALEAGADDYLTKPFDPEELLARVDLV 118

HATPase_DpiB-CitA-like

cd16915

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

905-1002

7.57e-11

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli K-12 DpiB, DcuS, and Bacillus subtilis CitS, DctS, and YufL; This family includes histidine kinase-like ATPase domains of Escherichia coli K-12 DpiB and DcuS, and Bacillus subtilis CitS, DctS and MalK histidine kinases (HKs) all of which are two component transduction systems (TCSs). E. coli K-12 DpiB (also known as CitA) is the histidine kinase (HK) of DpiA-DpiB, a two-component signal transduction system (TCS) required for the expression of citrate-specific fermentation genes and genes involved in plasmid inheritance. E. coli K-12 DcuS (also known as YjdH) is the HK of DcuS-DcuR, a TCS that in the presence of the extracellular C4-dicarboxlates, activates the expression of the genes of anaerobic fumarate respiration and of aerobic C4-dicarboxylate uptake. CitS is the HK of Bacillus subtilis CitS-CitT, a TCS which regulates expression of CitM, the Mg-citrate transporter. Bacillus subtilis DctS forms a tripartite sensor unit (DctS/DctA/DctB) for sensing C4 dicarboxylates. Bacillus subtilis MalK (also known as YfuL) is the HK of MalK-MalR (YufL-YufM) a TCS which regulates the expression of the malate transporters MaeN (YufR) and YflS, and is essential for utilization of malate in minimal medium. Proteins having this DpiB-CitA-like HATPase domain generally have sensor domains such as Cache and PAS, and a histidine kinase A (HisKA)-like SpoOB-type, alpha-helical domain.

Pssm-ID: 340392 [Multi-domain] Cd Length: 104 Bit Score: 59.99 E-value: 7.57e-11

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  905 VIQNFLTNAF-----RYNPEGKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEeftRGSQVRSDQGLGLGLAISKGIA 979
Cdd:cd16915     4 IVGNLIDNALdalaaTGAPNKQVEVFLRDEGDDLVIEVRDTGPGIAPELRDKVFE---RGVSTKGQGERGIGLALVRQSV 80

                          90       100
                  ....*....|....*....|...
gi 880811338  980 HVLGHQISMRSWPGQGSVFSITL 1002
Cdd:cd16915    81 ERLGGSITVESEPGGGTTFSIRI 103

PRK10549

two-component system sensor histidine kinase BaeS;

787-980

8.04e-11

two-component system sensor histidine kinase BaeS;

Pssm-ID: 182539 [Multi-domain] Cd Length: 466 Bit Score: 65.81 E-value: 8.04e-11

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  787 QSKSRFLAAVSHDLMQPLNAARlfasslSEVAKEQE-VKQLSSHIESALGAA----EDLIGDLLDISRLESGKLETNIHA 861
Cdd:PRK10549  238 QMRRDFMADISHELRTPLAVLR------GELEAIQDgVRKFTPESVASLQAEvgtlTKLVDDLHQLSLSDEGALAYRKTP 311

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  862 IAVHDVLTNLNAEFSA--LARQQKIEFKMiPSSLFIHSDPKLLRRVIQNFLTNAFRY-NPEGKVVLGARRVNGQVRIDVW 938
Cdd:PRK10549  312 VDLVPLLEVAGGAFRErfASRGLTLQLSL-PDSATVFGDPDRLMQLFNNLLENSLRYtDSGGSLHISAEQRDKTLRLTFA 390

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 880811338  939 DNGTGIDEDKQQEIFEEFTR--GSQVRSDQGLGLGLAISKGI--AH 980
Cdd:PRK10549  391 DSAPGVSDEQLQKLFERFYRteGSRNRASGGSGLGLAICLNIveAH 436

REC_HupR-like

cd17569

phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...

1027-1140

8.08e-11

phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar domains; This family is composed of mostly uncharacterized response regulators with similarity to the REC domains of response regulator components of two-component systems that regulates hydrogenase activity, including HupR and HoxA. HupR is part of the HupT/HupR system that controls the synthesis of the membrane-bound [NiFe]hydrogenase, HupSL, of the photosynthetic bacterium Rhodobacter capsulatus. It contains an N-terminal REC domain, a central sigma-54 interaction domain that lacks ATPase activity, and a C-terminal DNA-binding domain. Members of this family contain a REC domain and various output domains including the cyclase homology domain (CHD) and the c-di-GMP phosphodiesterase domains, HD-GYP and EAL. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381113 [Multi-domain] Cd Length: 118 Bit Score: 60.49 E-value: 8.08e-11

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1027 KILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDDwQPDVIFSDYRLDnGRTGLEVLQQCRLRLGDSFEgVII 1106
Cdd:cd17569     2 TILLVDDEPNILKALKRLLRREGYEVLTATSGEEALEILKQE-PVDVVISDQRMP-GMDGAELLKRVRERYPDTVR-ILL 78

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 880811338 1107 SADRtdDMLAAIKA-NS---FSFIAKPVKPLKLRAVLN 1140
Cdd:cd17569    79 TGYA--DLDAAIEAiNEgeiYRFLTKPWDDEELKETIR 114

HisKA

cd00082

Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed ...

786-849

9.66e-11

Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-autophosphorylation by the catalytic domain of the histidine kinase. They subsequently transfer the phosphoryl group to the Asp acceptor residue of a response regulator protein. Two-component signalling systems, consisting of a histidine protein kinase that senses a signal input and a response regulator that mediates the output, are ancient and evolutionarily conserved signaling mechanisms in prokaryotes and eukaryotes.

Pssm-ID: 119399 [Multi-domain] Cd Length: 65 Bit Score: 58.38 E-value: 9.66e-11

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 880811338  786 SQSKSRFLAAVSHDLMQPLNAARLFASSL-SEVAKEQEVKQLSSHIESALGAAEDLIGDLLDISR 849
Cdd:cd00082     1 LQAKGEFLANVSHELRTPLTAIRGALELLeEELLDDEEQREYLERIREEAERLLRLINDLLDLSR 65

HATPase_EcPhoR-like

cd16952

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

902-1005

1.31e-10

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli PhoR; This family includes histidine kinase-like ATPase (HATPase) domain of two-component sensor histidine kinases similar to Escherichia coli or Vibrio cholera PhoR, the histidine kinase (HK) of PhoB-PhoR a two-component signal transduction system (TCS) involved in phosphate regulation. PhoR monitors extracellular inorganic phosphate (Pi) availability and PhoB, the response regulator, regulates transcription of genes of the phosphate regulon. PhoR is a bifunctional histidine autokinase/phospho-PhoB phosphatase; in phosphate deficiency, it autophosphorylates and Pi is transferred to PhoB, and when environmental Pi is abundant, it removes the phosphoryl group from phosphorylated PhoB. Other roles of PhoB-PhoR TCS have been described, including motility, biofilm formation, intestinal colonization, and virulence in V. cholera. E.coli PhoR and Bacillus subtilis PhoR (whose HATPase domain belongs to a different family) sense very different signals in each bacterium. In E. coli the PhoR signal comes from phosphate transport mediated by the PstSCAB2 phosphate transporter and the PhoU chaperone-like protein while in B. subtilis, the PhoR activation signal comes from wall teichoic acid (WTA) metabolism.

Pssm-ID: 340428 [Multi-domain] Cd Length: 108 Bit Score: 59.52 E-value: 1.31e-10

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  902 LRRVIQNFLTNAFRYNPEG-KVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQ--GLGLGLAISKgi 978
Cdd:cd16952     1 LRSAFSNLVSNAVKYTPPSdTITVRWSQEESGARLSVEDTGPGIPPEHIPRLTERFYRVDIERCRNtgGTGLGLAIVK-- 78

                          90       100       110
                  ....*....|....*....|....*....|
gi 880811338  979 aHVLGH---QISMRSWPGQGSVFSITLARA 1005
Cdd:cd16952    79 -HVMSRhdaRLLIASELGKGSRFTCLFPSS 107

OmpR

COG0745

DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...

1026-1142

2.07e-10

DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain [Signal transduction mechanisms, Transcription];

Pssm-ID: 440508 [Multi-domain] Cd Length: 204 Bit Score: 61.51 E-value: 2.07e-10

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1026 LKILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLdDDWQPDVIFSDYRLDnGRTGLEVLQqcRLRLGDSFEGVI 1105
Cdd:COG0745     2 PRILVVEDDPDIRELLADALEREGYEVDTAADGEEALELL-EEERPDLILLDLMLP-GMDGLEVCR--RLRARPSDIPII 77

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 880811338 1106 I--SADRTDDMLAAIKANSFSFIAKPVKPLKLRAVLNRV 1142
Cdd:COG0745    78 MltARDDEEDRVRGLEAGADDYLTKPFDPEELLARIRAL 116

HATPase_CreC-like

cd16945

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

898-993

2.66e-10

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli CreC; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) such as Escherichia coli CreC of the CreC-CreB two-component regulatory system (TCS) involved in catabolic regulation. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA), and accessory sensory domain(s) such as HAMP, CACHE or PAS.

Pssm-ID: 340421 [Multi-domain] Cd Length: 106 Bit Score: 58.63 E-value: 2.66e-10

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  898 DPKLLRRVIQNFLTNAFRYNPEGKVV-LGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTR----GSQVRSDqglGLGL 972
Cdd:cd16945     1 DPFLLRQAINNLLDNAIDFSPEGGLIaLQLEADTEGIELLVFDEGSGIPDYALNRVFERFYSlprpHSGQKST---GLGL 77

                          90       100
                  ....*....|....*....|.
gi 880811338  973 AISKGIAHVLGHQISMRSWPG 993
Cdd:cd16945    78 AFVQEVAQLHGGRITLRNRPD 98

HisKA

smart00388

His Kinase A (phosphoacceptor) domain; Dimerisation and phosphoacceptor domain of histidine ...

788-853

3.38e-10

His Kinase A (phosphoacceptor) domain; Dimerisation and phosphoacceptor domain of histidine kinases.

Pssm-ID: 214644 [Multi-domain] Cd Length: 66 Bit Score: 56.81 E-value: 3.38e-10

                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 880811338    788 SKSRFLAAVSHDLMQPLNAARLFASSLSEVAKEQEVKQLSSHIESALGAAEDLIGDLLDISRLESG 853
Cdd:smart00388    1 AKREFLANLSHELRTPLTAIRGYLELLLDTELSEEQREYLETILREAERLLRLINDLLDLSRIEAG 66

CitB

COG4565

DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...

1026-1142

9.83e-10

DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal transduction mechanisms];

Pssm-ID: 443622 [Multi-domain] Cd Length: 138 Bit Score: 58.06 E-value: 9.83e-10

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1026 LKILCVDNEREILVGMENLIGRWG--CEVKTAVDLVESLKCLdDDWQPDVIFSDYRLDNGrTGLEVLQQCRLRLGDSfeG 1103
Cdd:COG4565     4 IRVLIVEDDPMVAELLRRYLERLPgfEVVGVASSGEEALALL-AEHRPDLILLDIYLPDG-DGLELLRELRARGPDV--D 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 880811338 1104 VII--SADRTDDMLAAIKANSFSFIAKPVKPLKLRAVLNRV 1142
Cdd:COG4565    80 VIVitAARDPETVREALRAGVVDYLIKPFTFERLREALERY 120

YesN

COG4753

Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...

1027-1129

1.34e-09

Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding domains [Signal transduction mechanisms, Transcription];

Pssm-ID: 443786 [Multi-domain] Cd Length: 103 Bit Score: 56.32 E-value: 1.34e-09

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1027 KILCVDNEREILVGMENLIGR-WGCE-VKTAVDLVESLKCLdDDWQPDVIFSDYRLDnGRTGLEVLQQCRlRLGDSFEGV 1104
Cdd:COG4753     1 KVLIVDDEPLIREGLKRILEWeAGFEvVGEAENGEEALELL-EEHKPDLVITDINMP-GMDGLELLEAIR-ELDPDTKII 77

                          90       100
                  ....*....|....*....|....*.
gi 880811338 1105 IISADRTDDMLA-AIKANSFSFIAKP 1129
Cdd:COG4753    78 ILSGYSDFEYAQeAIKLGADDYLLKP 103

HATPase_Glnl-NtrB-like

cd16918

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

922-1002

1.36e-09

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli GlnL (synonyms NtrB and NRII); This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs), similar to Escherichia coli GlnL/NtrB/NRII HK of the two-component regulatory system (TCS) GlnL/GlnG (NtrB-NtrC, or NRII-NRI), which regulates the transcription of genes encoding metabolic enzymes and permeases in response to carbon and nitrogen status in E. coli and related bacteria. Also included in this family are Rhodobacter capsulatus NtrB, Azospirillum brasilense NtrB, Vibrio alginolyticus NtrB, Rhizobium leguminosarum biovar phaseoli NtrB, and Herbaspirillum seropedicae NtrB. Escherichia coli GlnL/NtrB/NRII is both a kinase and a phosphatase, catalyzing the phosphorylation and dephosphorylation of GlnG/NtrC/NRI. The kinase and phosphatase activities of GlnL/NtrB/NRII are regulated by the PII signal transduction protein, which on binding to GlnL/NtrB/NRII, inhibits the kinase activity of GlnL/NtrB/NRII and activates the GlnL/NtrB/NRII phosphatase activity. Proteins having this HATPase domain also have a histidine kinase dimerization and phosphoacceptor domain (HisKA); some also contain PAS sensor domain(s).

Pssm-ID: 340395 [Multi-domain] Cd Length: 109 Bit Score: 56.64 E-value: 1.36e-09

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  922 VVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQvrsdQGLGLGLAISKGIAHVLGHQISMRSWPGQgSVFSIT 1001
Cdd:cd16918    33 VTLGHPRHRLALRVSVIDNGPGIPPDLQDTIFYPMVSGRE----NGTGLGLAIAQNIVSQHGGVIECDSQPGH-TVFSVS 107


                  .
gi 880811338 1002 L 1002
Cdd:cd16918   108 L 108

PAS

COG2202

PAS domain [Signal transduction mechanisms];

626-761

2.29e-09

PAS domain [Signal transduction mechanisms];

Pssm-ID: 441804 [Multi-domain] Cd Length: 258 Bit Score: 59.65 E-value: 2.29e-09

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  626 SRGLLQGAIEHIGQGIAVIDKQMRLVAWNQRYLELFEFPAGLIqVGRPISDVIrhnaeqglcgPGDPEDHVRRRVYHLEQ 705
Cdd:COG2202     9 SERRLRALVESSPDAIIITDLDGRILYVNPAFERLTGYSAEEL-LGKTLRDLL----------PPEDDDEFLELLRAALA 77

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 880811338  706 GTRHTSS---RIRPDGRVIEV----------QGNPMpsgGFVMSFTDITVFRQAEQALKDANESLESRV 761
Cdd:COG2202    78 GGGVWRGelrNRRKDGSLFWVelsispvrdeDGEIT---GFVGIARDITERKRAEEALRESEERLRLLV 143

HATPase_PhoQ-like

cd16954

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

889-1002

3.38e-09

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli PhoQ and Providencia stuartii AarG; This family includes histidine kinase-like ATPase (HATPase) domain of two-component sensor histidine kinases similar to Escherichia coli PhoQ and Providencia stuartii AarG. PhoQ is the histidine kinase (HK) of the PhoP-PhoQ two-component regulatory system (TCS), which responds to the levels of Mg2+ and Ca2+, controls virulence, mediates the adaptation to Mg2+-limiting environments, and regulates numerous cellular activities. Providencia stuartii AarG is a putative sensor kinase which controls the expression of the 2'-N-acetyltransferase and an intrinsic multiple antibiotic resistance (Mar) response in Providencia stuartii. The AarG product is similar to PhoQ in that it is able to restore wild-type levels of resistance to a Salmonella typhimurium phoQ mutant. However, the expression of the 2'-N-acetyltransferase gene and of aarP (a gene encoding a transcriptional activator of 2'-N-acetyltransferase) are not significantly affected by the levels of Mg2+ or Ca2+. Most proteins in this group contain a histidine kinase dimerization and phosphoacceptor domain (HisKA); some have an accessory HAMP sensor domain, and some have an intracellular membrane -interaction PhoQ sensor domain.

Pssm-ID: 340430 [Multi-domain] Cd Length: 135 Bit Score: 56.10 E-value: 3.38e-09

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  889 IPSSLFIHSDPKLLRRVIQNFLTNAFRYNPEgKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQGL 968
Cdd:cd16954    25 ISPELRFPGERNDLMELLGNLLDNACKWCLE-FVEVTARQTDGGLHLIVDDDGPGVPESQRSKIFQRGQRLDEQRPGQGL 103

                          90       100       110
                  ....*....|....*....|....*....|....
gi 880811338  969 glGLAISKGIAHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:cd16954   104 --GLAIAKEIVEQYGGELSLSDSPLGGARFEVVF 135

RocR

COG3829

RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ...

629-753

1.60e-08

RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis domains [Transcription, Signal transduction mechanisms];

Pssm-ID: 443041 [Multi-domain] Cd Length: 448 Bit Score: 58.24 E-value: 1.60e-08

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  629 LLQGAIEHIGQGIAVIDKQMRLVAWNQRYLELFEFPAGLIqVGRPISDVIRHNAEQGLCGPGDPEDHVRRRVYHLEQGTR 708
Cdd:COG3829    12 ELEAILDSLDDGIIVVDADGRITYVNRAAERILGLPREEV-IGKNVTELIPNSPLLEVLKTGKPVTGVIQKTGGKGKTVI 90

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 880811338  709 HTSSRIRPDGRVIevqgnpmpsgGFVMSFTDITVFRQAEQALKDA 753
Cdd:COG3829    91 VTAIPIFEDGEVI----------GAVETFRDITELKRLERKLREE 125

HATPase_TmoS-FixL-DctS-like

cd16920

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

931-1002

2.08e-08

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Rhizobium meliloti FixL, and Rhodobacter capsulatus DctS; includes hybrid sensor histidine kinase similar to Pseudomonas mendocina TmoS; This family includes the histidine kinase-like ATPase (HATPase) domains of various histidine kinases (HKs) of two-component signal transduction systems (TCSs), such as Pseudomonas mendocina TmoS HK of the TmoS-TmoT TCS, which controls the expression of the toluene-4-monooxygenase pathway, Rhizobium meliloti FixL HK of the FixL-FixJ TCS, which regulates the expression of the genes related to nitrogen fixation in the root nodule in response to O(2) levels, and Rhodobacter capsulatus DctS of the DctS-DctR TCS, which controls synthesis of the high-affinity C4-dicarboxylate transport system. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA) and PAS sensor domain(s); many are hybrid sensor histidine kinases as they also contain a REC signal receiver domain.

Pssm-ID: 340397 [Multi-domain] Cd Length: 104 Bit Score: 53.17 E-value: 2.08e-08

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 880811338  931 GQVRIDVWDNGTGIDEDKQQEIFEEFTrgsqVRSDQGLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:cd16920    36 RAVTISVKDTGPGIAEEVAGQLFDPFY----TTKSEGLGMGLSICRSIIEAHGGRLSVESPAGGGATFQFTL 103

HATPase_SpaK_NisK-like

cd16975

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

898-988

3.05e-08

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Bacillus subtilis SpaK and Lactococcus lactis NisK; This family includes histidine kinase-like ATPase (HATPase) domain of two-component sensor histidine kinases similar to Bacillus subtilis SpaK and Lactococcus lactis NisK. SpaK is the histidine kinase (HK) of the SpaK-SpaR two-component regulatory system (TCS), which is involved in the regulation of the biosynthesis of lantibiotic subtilin. NisK is the HK of the NisK-NisR TCS, which is involved in the regulation of the biosynthesis of lantibiotic nisin. SpaK and NisK may function as membrane-associated protein kinases that phosphorylate SpaR and NisR, respectively, in response to environmental signals.

Pssm-ID: 340434 [Multi-domain] Cd Length: 107 Bit Score: 52.85 E-value: 3.05e-08

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  898 DPKLLRRVIQNFLTNAFRYNPEGKVV-LGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQG-LGLGLAIS 975
Cdd:cd16975     1 DTLLLSRALINIISNACQYAPEGGTVsISIYDEEEYLYFEIWDNGHGFSEQDLKKALELFYRDDTSRRSGGhYGMGLYIA 80

                          90
                  ....*....|...
gi 880811338  976 KGIAHVLGHQISM 988
Cdd:cd16975    81 KNLVEKHGGSLII 93

REC_PilR

cd19926

phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...

1028-1129

3.24e-08

phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR and similar proteins; Pseudomonas aeruginosa PilR is the response regulator of the PilS/PilR two-component regulatory system (PilSR TCS) that acts in conjunction with sigma-54 to regulate the expression of type 4 pilus (T4P) major subunit PilA. In addition, the PilSR TCS regulates flagellum-dependent swimming motility and pilus-dependent twitching motility. PilR contains an N-terminal REC domain, a central sigma-54 interaction domain, and a C-terminal Fis-type helix-turn-helix DNA-binding domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381153 [Multi-domain] Cd Length: 100 Bit Score: 52.54 E-value: 3.24e-08

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1028 ILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDdwQP-DVIFSDYRLDNGrTGLEVLQQCRLRLGDSFEGVII 1106
Cdd:cd19926     1 VLVVDDEPDIRELLEITLGRMGLDVRSARNVKEARELLAS--EPyDLCLTDMRLPDG-SGLELVQHIQQRLPQTPVAVIT 77

                          90       100
                  ....*....|....*....|...
gi 880811338 1107 SADRTDDMLAAIKANSFSFIAKP 1129
Cdd:cd19926    78 AYGSLDTAIEALKAGAFDFLTKP 100

REC_YesN-like

cd17536

phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...

1028-1142

5.70e-08

phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response regulators; This family is composed of uncharacterized response regulators that contain a REC domain and a AraC family helix-turn-helix (HTH) DNA-binding output domain, including Bacillus subtilis uncharacterized transcriptional regulatory protein YesN and Staphylococcus aureus uncharacterized response regulatory protein SAR0214. YesN is a member of the two-component regulatory system YesM/YesN and SAR0214 is a member of the probable two-component regulatory system SAR0215/SAR0214. Also included in this family is the AlgR-like group of LytTR/AlgR family response, which includes Pseudomonas aeruginosa positive alginate biosynthesis regulatory protein AlgR and Bacillus subtilis sensory transduction protein LytT, among others. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381091 [Multi-domain] Cd Length: 121 Bit Score: 52.34 E-value: 5.70e-08

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1028 ILCVDNEREILVGMENLI--GRWGCE-VKTAVDLVESLKCLDDdWQPDVIFSDYR---LDngrtGLEVLQQCRlRLGDSF 1101
Cdd:cd17536     1 VLIVDDEPLIREGLKKLIdwEELGFEvVGEAENGEEALELIEE-HKPDIVITDIRmpgMD----GLELIEKIR-ELYPDI 74

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 880811338 1102 EGVIISA-DRTDDMLAAIKANSFSFIAKPVKPLKLRAVLNRV 1142
Cdd:cd17536    75 KIIILSGyDDFEYAQKAIRLGVVDYLLKPVDEEELEEALEKA 116

sensory_box

TIGR00229

PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain ...

633-750

1.11e-07

Pssm-ID: 272971 [Multi-domain] Cd Length: 124 Bit Score: 51.52 E-value: 1.11e-07

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   633 AIEHIGQGIAVIDKQMRLVAWNQRYLELFEF-PAGLIqvGRPISDVIrhnaeqglcgPGDPEDHVRRRVYHLEQGTRHTS 711
Cdd:TIGR00229    8 IFESSPDAIIVIDLEGNILYVNPAFEEIFGYsAEELI--GRNVLELI----------PEEDREEVRERIERRLEGEPEPV 75

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*....
gi 880811338   712 S----RIRPDGRVI--EVQGNPMPSGG----FVMSFTDITVFRQAEQAL 750
Cdd:TIGR00229   76 SeerrVRRKDGSEIwvEVSVSPIRTNGgelgVVGIVRDITERKEAEEAL 124

REC_DctD-like

cd17549

phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...

1028-1141

2.49e-07

phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and similar proteins; C4-dicarboxylic acid transport protein D (DctD) is part of the two-component regulatory system DctB/DctD, which regulates C4-dicarboxylate transport via regulation of expression of the dctPQM operon and dctA. It is an activator of sigma(54)-RNA polymerase holoenzyme that uses the energy released from ATP hydrolysis to stimulate the isomerization of a closed promoter complex to an open complex capable of initiating transcription. DctD is a member of the NtrC family, characterized by a domain architecture containing an N-terminal REC domain, followed by a central sigma-54 interaction/ATPase domain, and a C-terminal DNA binding domain. The ability of the central domain to hydrolyze ATP and thus to interact effectively with a complex of RNA polymerase, sigma54, and promoter, is controlled by the phosphorylation status of the REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381101 [Multi-domain] Cd Length: 130 Bit Score: 50.57 E-value: 2.49e-07

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1028 ILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDDWqPDVIFSDYRLDnGRTGLEVLQQcrLRLGDSFEGVIIS 1107
Cdd:cd17549     1 VLLVDDDADVREALQQTLELAGFRVRAFADAEEALAALSPDF-PGVVISDIRMP-GMDGLELLAQ--IRELDPDLPVILI 76

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 880811338 1108 ADRTDDMLA--AIKANSFSFIAKPVKPLKLRAVLNR 1141
Cdd:cd17549    77 TGHGDVPMAveAMRAGAYDFLEKPFDPERLLDVVRR 112

PAS

COG2202

PAS domain [Signal transduction mechanisms];

626-750

3.89e-07

PAS domain [Signal transduction mechanisms];

Pssm-ID: 441804 [Multi-domain] Cd Length: 258 Bit Score: 52.72 E-value: 3.89e-07

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  626 SRGLLQGAIEHIGQGIAVIDKQMRLVAWNQRYLELFEFPAGLIqVGRPISDVIRHNAEQGLcgpgdpEDHVRRRVYHLEQ 705
Cdd:COG2202   135 SEERLRLLVENAPDGIFVLDLDGRILYVNPAAEELLGYSPEEL-LGKSLLDLLHPEDRERL------LELLRRLLEGGRE 207

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 880811338  706 GTRHTSSRIRPDGRVIEVQGNPMPS------GGFVMSFTDITVFRQAEQAL 750
Cdd:COG2202   208 SYELELRLKDGDGRWVWVEASAVPLrdggevIGVLGIVRDITERKRAEEAL 258

COG4567

DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...

1027-1142

4.97e-07

DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains [Signal transduction mechanisms, Transcription];

Pssm-ID: 443624 [Multi-domain] Cd Length: 177 Bit Score: 51.07 E-value: 4.97e-07

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1027 KILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLdDDWQPDVIFSDYRLDNGrTGLEVLQQCRLRLGDSfEGVII 1106
Cdd:COG4567     6 SLLLVDDDEAFARVLARALERRGFEVTTAASVEEALALL-EQAPPDYAVLDLRLGDG-SGLDLIEALRERDPDA-RIVVL 82

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 880811338 1107 SADRTDDM-LAAIKANSFSFIAKPVKPLKLRAVLNRV 1142
Cdd:COG4567    83 TGYASIATaVEAIKLGADDYLAKPADADDLLAALERA 119

LytT

COG3279

DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...

1026-1142

7.76e-07

DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction mechanisms];

Pssm-ID: 442510 [Multi-domain] Cd Length: 235 Bit Score: 51.36 E-value: 7.76e-07

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1026 LKILCVDNEREILVGMENLIGRW-GCE-VKTAVDLVESLKCLDDdWQPDVIFSDYRLdNGRTGLEVLQQCRlRLGDSFEG 1103
Cdd:COG3279     2 MKILIVDDEPLARERLERLLEKYpDLEvVGEASNGEEALELLEE-HKPDLVFLDIQM-PGLDGFELARQLR-ELDPPPPI 78

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 880811338 1104 VIISADrTDDMLAAIKANSFSFIAKPVKPLKLRAVLNRV 1142
Cdd:COG3279    79 IFTTAY-DEYALEAFEVNAVDYLLKPIDEERLAKALEKA 116

HATPase_CckA-like

cd16919

Histidine kinase-like ATPase domain of two-component sensor hybrid histidine kinases, similar ...

902-1002

8.71e-07

Histidine kinase-like ATPase domain of two-component sensor hybrid histidine kinases, similar to Brucella abortus 2308 CckA; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component hybrid sensor histidine kinase (HKs) similar to Brucella abortus 2308 CckA, which is a component of an essential protein phosphorelay that regulates expression of genes required for growth, division, and intracellular survival; phosphoryl transfer initiates from the sensor kinase CckA and proceeds via the ChpT phosphotransferase to two regulatory substrates: the DNA-binding response regulator CtrA and the phospho-receiver protein CpdR. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA), a REC signal receiver domain, and some contain PAS or PAS and GAF sensor domain(s).

Pssm-ID: 340396 [Multi-domain] Cd Length: 116 Bit Score: 48.92 E-value: 8.71e-07

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  902 LRRVIQNFLTNAFRYNPE-GKVVLGARRV--------------NGQ-VRIDVWDNGTGIDEDKQQEIFEEFTRGSQVrsD 965
Cdd:cd16919     1 LELAILNLAVNARDAMPEgGRLTIETSNQrvdadyalnyrdliPGNyVCLEVSDTGSGMPAEVLRRAFEPFFTTKEV--G 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 880811338  966 QGLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:cd16919    79 KGTGLGLSMVYGFVKQSGGHLRIYSEPGVGTTVRIYL 115

PAS_4

pfam08448

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...

635-745

9.41e-07

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. This domain is associated to signalling systems and works as a signal sensor domain. It recognizes differently substituted aromatic hydrocarbons, oxygen, different dodecanoic acids, autoinducers, 3,5-dimethyl-pyrazin-2-ol and N-alanyl-aminoacetone (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).

Pssm-ID: 312075 [Multi-domain] Cd Length: 110 Bit Score: 48.56 E-value: 9.41e-07

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   635 EHIGQGIAVIDKQMRLVAWNQRYLELFEFPAGLIqVGRPISDVIrhnaeqGLCGPGDPEDHVRR-----------RVYHL 703
Cdd:pfam08448    2 DSLPDALAVLDPDGRVRYANAAAAELFGLPPEEL-LGKTLAELL------PPEDAARLERALRRalegeepidflEELLL 74

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*.
gi 880811338   704 EQGTRHTSSRIRP----DGRVIevqgnpmpsgGFVMSFTDITVFRQ 745
Cdd:pfam08448   75 NGEERHYELRLTPlrdpDGEVI----------GVLVISRDITERRR 110

ComP

COG4585

Signal transduction histidine kinase ComP [Signal transduction mechanisms];

757-1007

1.09e-06

Signal transduction histidine kinase ComP [Signal transduction mechanisms];

Pssm-ID: 443642 [Multi-domain] Cd Length: 252 Bit Score: 51.16 E-value: 1.09e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  757 LESRVHERTQELEKLNHRLVKATQisDQEsqsKSRfLAAVSHD-LMQPLNAARLFASSLSEVAkEQEVKQLSSHIESALG 835
Cdd:COG4585    27 LRARRAERAAELERELAARAEEAR--EEE---RRR-IARELHDgVGQSLSAIKLQLEAARRLL-DADPEAAREELEEIRE 99

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  836 AAEDLIGDLLDISRlesgkletNIHAIAVHDVltNLNAEFSALARQQ------KIEFKMIPSSLFIHSDPKL-LRRVIQN 908
Cdd:COG4585   100 LAREALAELRRLVR--------GLRPPALDDL--GLAAALEELAERLlraagiRVELDVDGDPDRLPPEVELaLYRIVQE 169

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  909 FLTNAFRYNPEGKVVLGARRVNGQVRIDVWDNGTGIDEDKQqeifeeftrgsqvrsdQGLGLGLAISKGIAHVLGHQISM 988
Cdd:COG4585   170 ALTNALKHAGATRVTVTLEVDDGELTLTVRDDGVGFDPEAA----------------PGGGLGLRGMRERAEALGGTLTI 233

                         250
                  ....*....|....*....
gi 880811338  989 RSWPGQGSVFSITLARAEK 1007
Cdd:COG4585   234 GSAPGGGTRVRATLPLAAA 252

COG3920

Two-component sensor histidine kinase, HisKA and HATPase domains [Signal transduction ...

529-1009

1.70e-06

Two-component sensor histidine kinase, HisKA and HATPase domains [Signal transduction mechanisms];

Pssm-ID: 443125 [Multi-domain] Cd Length: 495 Bit Score: 52.21 E-value: 1.70e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  529 LYQSRVTVAELEMLASRFVGRKRAKSALHSYWQQHGQPLLPNQQAPASLIRHAERVLAGVFGASSAKLVLTSALQGRNMQ 608
Cdd:COG3920    68 AVALAAAVGAAAALLALLVLLLLLLLAAAALALALLLAALAGLLLLAALLLLRLVALLAALALLALLLLLLLLLAILALA 147

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  609 LEEVATIVDEASELYDFSRGLLQGAIEHIGQGIAVIDKQMRLVAWNQRYLELFEFPAGLIQVGRPISDVIRHNAEQgLCG 688
Cdd:COG3920   148 ELAVALAELAAALLLLAEELAALRLAAAALLLLLAALLDLGLALAALAAAALLALLLALELLLALLLLLLLLLALL-LVL 226

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  689 PGDPEDHVRRRVYHLEQGTRHTSSRIRPDGRVIEVQGNPMPSGGFVMSFTDITVFRQAEQALKDANESLESRVHErtqel 768
Cdd:COG3920   227 LAALLRLRAAVLEELERRRRARGLGRLLLLLLLLLLLLRALLLLAAGIRLVITERKRAEEELEASLEEKELLLRE----- 301

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  769 ekLNHRlVKATqisdqesqsksrfLAAVShdlmqplNAARLFASSLSEVAKEQEVKQLSSHIEsALGAAEDLIgdlldis 848
Cdd:COG3920   302 --LHHR-VKNN-------------LQVVS-------SLLRLQARRADDPEAREALEESQNRIQ-ALALVHELL------- 350

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  849 rLESGKLETnihaIAVHDVLTNLNAEFSALARQQKIEFKMIPSSLFIHSD---PKLLrrVIQNFLTNAFRY----NPEGK 921
Cdd:COG3920   351 -YQSEDWEG----VDLRDYLRELLEPLRDSYGGRGIRIELDGPDVELPADaavPLGL--ILNELVTNALKHaflsGEGGR 423

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  922 VVLGARRVNGQVRIDVWDNGTGIDEDkqqeifeeftrgsqVRSDQGLGLGLAISKGIAHVLGHQISMRSwpGQGSVFSIT 1001
Cdd:COG3920   424 IRVSWRREDGRLRLTVSDNGVGLPED--------------VDPPARKGLGLRLIRALVRQLGGTLELDR--PEGTRVRIT 487


                  ....*...
gi 880811338 1002 LARAEKVA 1009
Cdd:COG3920   488 FPLAELAA 495

PRK11086

sensory histidine kinase DcuS; Provisional

905-1002

1.77e-06

sensory histidine kinase DcuS; Provisional

Pssm-ID: 236839 [Multi-domain] Cd Length: 542 Bit Score: 52.22 E-value: 1.77e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  905 VIQNFLTNAFRY---NPEGKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEE--FTRGSqvrsdqGLGLGLAISKGIA 979
Cdd:PRK11086  437 ILGNLIENALEAvggEEGGEISVSLHYRNGWLHCEVSDDGPGIAPDEIDAIFDKgySTKGS------NRGVGLYLVKQSV 510

                          90       100
                  ....*....|....*....|...
gi 880811338  980 HVLGHQISMRSWPGQGSVFSITL 1002
Cdd:PRK11086  511 ENLGGSIAVESEPGVGTQFFVQI 533

HATPase_BvrS-ChvG-like

cd16953

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

902-1002

2.34e-06

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Brucella abortus BvrS and Sinorhizobium meliloti ChvG; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) such as Brucella abortus BvrS of the BvrR-BvrS two-component regulatory system (TCS), which controls cell invasion and intracellular survival, as well as Sinorhizobium meliloti and Agrobacterium tumefaciens ChvG of the ChvI-ChvG TCS necessary for endosymbiosis and pathogenicity in plants. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA), an accessory HAMP sensor domain, a periplasmic stimulus-sensing domain, and some also have a sensor N-terminal transmembrane domain.

Pssm-ID: 340429 [Multi-domain] Cd Length: 110 Bit Score: 47.57 E-value: 2.34e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  902 LRRVIQNFLTNAFRYNPE--GKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEF--TRGSQVRSDQGLGLGLAISKG 977
Cdd:cd16953     1 LGQVLRNLIGNAISFSPPdtGRITVSAMPTGKMVTISVEDEGPGIPQEKLESIFDRFytERPANEAFGQHSGLGLSISRQ 80

                          90       100
                  ....*....|....*....|....*....
gi 880811338  978 IAHVLGHQI--SMRSWPGQ--GSVFSITL 1002
Cdd:cd16953    81 IIEAHGGISvaENHNQPGQviGARFTVQL 109

YesM

COG2972

Sensor histidine kinase YesM [Signal transduction mechanisms];

900-1002

2.91e-06

Sensor histidine kinase YesM [Signal transduction mechanisms];

Pssm-ID: 442211 [Multi-domain] Cd Length: 445 Bit Score: 51.17 E-value: 2.91e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  900 KLLRRVIQNFLTNAFRY-----NPEGKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSqvrsdQGLGLGLA- 973
Cdd:COG2972   335 LIPKLILQPLVENAIEHgiepkEGGGTIRISIRKEGDRLVITVEDNGVGMPEEKLEKLLEELSSKG-----EGRGIGLRn 409

                          90       100       110
                  ....*....|....*....|....*....|.
gi 880811338  974 ISKGIAHVLG--HQISMRSWPGQGSVFSITL 1002
Cdd:COG2972   410 VRERLKLYYGeeYGLEIESEPGEGTTVTIRI 440

REC_NtrX-like

cd17550

phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...

1028-1142

2.98e-06

phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and similar proteins; NtrX is part of the two-component regulatory system NtrY/NtrX that is involved in the activation of nitrogen assimilatory genes such as Gln. It is phosphorylated by the histidine kinase NtrY and interacts with sigma-54. NtrX is a member of the NtrC family, characterized by a domain architecture containing an N-terminal REC domain, followed by a central sigma-54 interaction/ATPase domain, and a C-terminal DNA binding domain. NtrC family response regulators are sigma54-dependent transcriptional activators. Also included in this subfamily is Aquifex aeolicus NtrC4. The ability of the central domain to hydrolyze ATP and thus to interact effectively with a complex of RNA polymerase, sigma54, and promoter, is controlled by the phosphorylation status of the REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381102 [Multi-domain] Cd Length: 115 Bit Score: 47.11 E-value: 2.98e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1028 ILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDDwQPDVIFSDYRLdNGRTGLEVLQQCRlRLGDSFEGVIIS 1107
Cdd:cd17550     1 ILIVDDEEDIRESLSGILEDEGYEVDTAADGEEALKLIKER-RPDLVLLDIWL-PDMDGLELLKEIK-EKYPDLPVIMIS 77

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 880811338 1108 ADRT-DDMLAAIKANSFSFIAKPVKPLKLRAVLNRV 1142
Cdd:cd17550    78 GHGTiETAVKATKLGAYDFIEKPLSLDRLLLTIERA 113

PRK10618

phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional

764-1002

6.10e-06

phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional

Pssm-ID: 236726 [Multi-domain] Cd Length: 894 Bit Score: 50.70 E-value: 6.10e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  764 RTQELEKL-NHRLVKATQISDQESQSKSRFLAAVSHDLMQPLNAARLFASSLSEVAKEQEVKQLSSHIESALGAAEDLIG 842
Cdd:PRK10618  424 RDQDREVLvNKKLQQAQREYEKNQQARKAFLQNIGDELKQPLQSLAQLAAQLRQTSDEEQQQPELDQLAEQSDVLVRLVD 503

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  843 DLLDISRLESGKLETNIHAIAVHDVLTNLNAEfsALAR-QQK-----IEFKMIPSSLFIhSDPKLLRRVIQNFLTNAFRY 916
Cdd:PRK10618  504 NIQLLNMLETQDWKPEQELFSLQDLIDEVLPE--VLPAiKRKglqllIHNHLKAEQLRI-GDRDALRKILLLLLNYAITT 580

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  917 NPEGKVVLgarRVN------GQVRIDVWDNGTGIDEDKQQEIFEEF-TRGSQVRSDQGLGLGLAISKGIAHVLGHQISMR 989
Cdd:PRK10618  581 TAYGKITL---EVDqdesspDRLTIRILDTGAGVSIKELDNLHFPFlNQTQGDRYGKASGLTFFLCNQLCRKLGGHLTIK 657

                         250
                  ....*....|...
gi 880811338  990 SWPGQGSVFSITL 1002
Cdd:PRK10618  658 SREGLGTRYSIHL 670

HATPase_CheA-like

cd16916

Histidine kinase-like ATPase domain of the chemotaxis protein histidine kinase CheA, and some ...

917-1002

6.42e-06

Histidine kinase-like ATPase domain of the chemotaxis protein histidine kinase CheA, and some hybrid sensor histidine kinases; This family includes the cytoplasmic histidine kinase (HK) CheA, a transmembrane receptor which, together with cytoplasmic adaptor protein (CheW), forms the lattice at the core of the chemosensory array that controls the cellular chemotaxis of motile bacteria and archaea. CheA forms a two-component signal transduction system (TCS) with the response regulator CheY. Proteins having this CheA-like HATPase domain generally also have a histidine-phosphotransfer domain, a histidine kinase homodimeric domain, and a regulatory domain; some are hybrid sensor histidine kinases as they contain a REC signal receiver domain.

Pssm-ID: 340393 [Multi-domain] Cd Length: 178 Bit Score: 47.96 E-value: 6.42e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  917 NPEGKVVLGARRVNGQVRIDVWDNGTGIDEDK--------------------QQEIFE-----EFTRGSQVRSDQGLGLG 971
Cdd:cd16916    67 PPEGTITLRAEHQGNQVVIEVSDDGRGIDREKirekaierglitadeaatlsDDEVLNlifapGFSTAEQVTDVSGRGVG 146

                          90       100       110
                  ....*....|....*....|....*....|.
gi 880811338  972 LAISKGIAHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:cd16916   147 MDVVKRSIESLGGTIEVESEPGQGTTFTIRL 177

PRK13557

histidine kinase; Provisional

933-1140

8.14e-06

histidine kinase; Provisional

Pssm-ID: 237425 [Multi-domain] Cd Length: 540 Bit Score: 50.05 E-value: 8.14e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  933 VRIDVWDNGTGIDEDKQQEIFEEF--TRGSqvrsDQGLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSITLARAEKVAP 1010
Cdd:PRK13557  325 VSIAVTDTGSGMPPEILARVMDPFftTKEE----GKGTGLGLSMVYGFAKQSGGAVRIYSEVGEGTTVRLYFPASDQAEN 400

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1011 VVQASAPMATSDIEHLKILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDDWQPDVIFSDYRLDNGRTGLEVL 1090
Cdd:PRK13557  401 PEQEPKARAIDRGGTETILIVDDRPDVAELARMILEDFGYRTLVASNGREALEILDSHPEVDLLFTDLIMPGGMNGVMLA 480

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 880811338 1091 QQCRLRL-----------GDSfegviiSADRTDdmlaaIKANSFSFIAKPVKPLKL----RAVLN 1140
Cdd:PRK13557  481 REARRRQpkikvllttgyAEA------SIERTD-----AGGSEFDILNKPYRRAELarrvRMVLD 534

REC_HupR

cd17596

phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...

1028-1135

8.17e-06

phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of this subfamily are response regulator components of two-component systems that regulates hydrogenase activity, including HupR and HoxA. HupR is part of the HupT/HupR system that controls the synthesis of the membrane-bound [NiFe]hydrogenase, HupSL, of the photosynthetic bacterium Rhodobacter capsulatus. It belongs to the nitrogen regulatory protein C (NtrC) family of response regulators, which activate transcription by RNA polymerase (RNAP) in response to a change in the environment. HupR is an unusual member of this family as it activates transcription when unphosphorylated, and transcription is inhibited by phosphorylation. Proteins in this subfamily contain an N-terminal REC domain, a central sigma-54 interaction domain that lacks ATPase activity, and a C-terminal DNA-binding domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381127 [Multi-domain] Cd Length: 133 Bit Score: 46.59 E-value: 8.17e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1028 ILCVDNEREILVGMENLIgRWGCEVKTAVDLVESLKCLDDDWQpDVIFSDYRLDnGRTGLEVLQQCRLRLGDSFEGVIIS 1107
Cdd:cd17596     3 ILVVDDEVRSLEALRRTL-EEDFDVLTAASAEEALAILEEEWV-QVILCDQRMP-GTTGVEFLKEVRERWPEVVRIIISG 79

                          90       100
                  ....*....|....*....|....*....
gi 880811338 1108 ADRTDDMLAAI-KANSFSFIAKPVKPLKL 1135
Cdd:cd17596    80 YTDSEDIIAGInEAGIYQYLTKPWHPDQL 108

AmiR

COG3707

Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...

1026-1139

9.42e-06

Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding antiterminator (ANTAR) domains [Signal transduction mechanisms, Transcription];

Pssm-ID: 442921 [Multi-domain] Cd Length: 194 Bit Score: 47.64 E-value: 9.42e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1026 LKILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDDWQPDVIFSDYRLDnGRTGLEVLQQCRlrlGDSFEGVI 1105
Cdd:COG3707     4 LRVLVVDDEPLRRADLREGLREAGYEVVAEAADGEDAVELVRELKPDLVIVDIDMP-DRDGLEAARQIS---EERPAPVI 79

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 880811338 1106 ISADRTDD--MLAAIKANSFSFIAKPVKPLKLRAVL 1139
Cdd:COG3707    80 LLTAYSDPelIERALEAGVSAYLVKPLDPEDLLPAL 115

HATPase_NtrY-like

cd16944

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

898-1002

9.44e-06

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Azorhizobium caulinodans NtrY; This family includes the histidine kinase-like ATPase (HATPase) domains of various histidine kinases (HKs) of two-component signal transduction systems (TCSs) such as Azorhizobium caulinodans ORS571 NtrY of the NtrY-NtrX TCS, which is involved in nitrogen fixation and metabolism. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA) and a HAMP sensor domain; some also have PAS sensor domains.

Pssm-ID: 340420 [Multi-domain] Cd Length: 108 Bit Score: 45.61 E-value: 9.44e-06

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  898 DPKLLRRVIQNFLTNAfrynpeGKVVLGARRVNGQVRIDV------------WDNGTGIDEDKQQEIFEEFTrgsqVRSD 965
Cdd:cd16944     1 DTTQISQVLTNILKNA------AEAIEGRPSDVGEVRIRVeadqdgrivlivCDNGKGFPREMRHRATEPYV----TTRP 70

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 880811338  966 QGLGLGLAISKGIAHVLGHQISMRSWPGQGSVFSITL 1002
Cdd:cd16944    71 KGTGLGLAIVKKIMEEHGGRISLSNREAGGACIRIIL 107

RsbW

COG2172

Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms];

910-979

1.05e-05

Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms];

Pssm-ID: 441775 [Multi-domain] Cd Length: 127 Bit Score: 46.06 E-value: 1.05e-05

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 880811338  910 LTNAFRY----NPEGKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEftrgsqvrsDQGLGLGLAISKGIA 979
Cdd:COG2172    43 VTNAVRHayggDPDGPVEVELELDPDGLEIEVRDEGPGFDPEDLPDPYST---------LAEGGRGLFLIRRLM 107

SLC5sbd_u4

cd11480

Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; SLC5 ...

77-447

1.10e-05

Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; SLC5 (also called the sodium/glucose cotransporter family or solute sodium symporter family) is a family of proteins that co-transports Na+ with sugars, amino acids, inorganic ions or vitamins. Prokaryotic members of this family include Vibrio parahaemolyticus glucose/galactose (vSGLT), and Escherichia coli proline (PutP) and pantothenate (PutF) cotransporters. One member of the SLC5 family, human SGLT3, has been characterized as a glucose sensor and not a transporter. This subfamily belongs to the solute carrier 5 (SLC5) transporter family.

Pssm-ID: 271374 Cd Length: 488 Bit Score: 49.43 E-value: 1.10e-05

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   77 FTLGWRILarLILIAKREHIT---SIADFIAARYGkSQGLAVAVTVIAVVGILPYIALQLRGitmgldivAPSLAQDFGY 153
Cdd:cd11480    75 WTGGYVLL--LLLVAEPLRNFgkyTVPDFLGARLG-SRPVRLVAAVSTLVISFFYLVAQMVG--------AGLLLSLLLG 143

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  154 QDYHVSWFVVGALAIFTMLFGtrhidntehhrGMMmAV----AFESIVKLAAFLIVGLFIMY------LAMSSDKIDLLD 223
Cdd:cd11480   144 IPYEVGVVVVGALMIVYVVLG-----------GMR-ATtwvqIIQYVLLLGAFLVPAILVLArfggnpLGAGPGLLGLAA 211

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  224 VAAST-----YESPNIPTLIIHTVLTMLAIV----CLPrqfHTMV----VENERpqdlhTARW----------LFPLYLI 280
Cdd:cd11480   212 AAASGageayLAPGLLLTDPLDVISLTLALMlgtaGLP---HVLMrfytVPDAR-----AARKsvvwalgfigLFYLLAP 283

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  281 LMGLFV------LPIAWAGQGLLPsMPADTYVISLPMAEGANHI--------ALLAFLggtSAASGMVIVSTIALAimvs 346
Cdd:cd11480   284 ALGFGAralvgpDVIGAPIAGELD-GGGDMAVLLLPEIAGLGDLllalvaagAFAAIL---ATVAGLLLAAASALA---- 355

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  347 NDLvMPLLLRRMRLTQRTHRHFSGLLLVIRRGLILLLLLGAWLFyqaldtIHSLSAIGFlSFAAIAqFAPALIGGLYWRP 426
Cdd:cd11480   356 HDL-YAGVIRPGASERREVRVARIAAVVVGVIAILLALLFPPQN------VAFLVALAF-AIAASA-FFPVLVLGIFWRR 426

                         410       420
                  ....*....|....*....|...
gi 880811338  427 GNRKGVYVGLMVG--SVIWLITL 447
Cdd:cd11480   427 FTTRGAIAGMLVGllVSLVLIVL 449

REC_DC-like

cd17534

phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...

1027-1140

1.99e-05

phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; This groups includes a modulated diguanylate cyclase containing a PAS sensor domain from Desulfovibrio desulfuricans G20. Members of this group contain N-terminal REC domains and various output domains including the GGDEF, histidine kinase, and helix-turn-helix (HTH) DNA binding domains. Also included in this family is Mycobacterium tuberculosis PdtaR, a transcriptional antiterminator that contains a REC domain and an ANTAR RNA-binding output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381089 [Multi-domain] Cd Length: 117 Bit Score: 45.09 E-value: 1.99e-05

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1027 KILCVDNEREILVGMENLIGRWGCEV-------KTAVDLVESLKcldddwqPDVIFSDYRLDNGRTGLEVLQQCRLRLGD 1099
Cdd:cd17534     2 KILIVEDEAIIALDLKEILESLGYEVvgiadsgEEAIELAEENK-------PDLILMDINLKGDMDGIEAAREIREKFDI 74

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 880811338 1100 SFegVIISADRTDDMLA-AIKANSFSFIAKPVKPLKLRAVLN 1140
Cdd:cd17534    75 PV--IFLTAYSDEETLErAKETNPYGYLVKPFNERELKAAIE 114

REC

smart00448

cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...

1026-1080

3.49e-05

cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar motors. This domain contains a phosphoacceptor site that is phosphorylated by histidine kinase homologues.

Pssm-ID: 214668 [Multi-domain] Cd Length: 55 Bit Score: 42.17 E-value: 3.49e-05

                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|....*
gi 880811338   1026 LKILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDDwQPDVIFSDYRL 1080
Cdd:smart00448    1 MRILVVDDDPLLRELLKALLEKEGYEVDEATDGEEALELLKEE-KPDLILLDIMM 54

HATPase_UhpB-NarQ-NarX-like

cd16917

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

902-1002

5.47e-05

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli UhpB, NarQ and NarX, and Bacillus subtilis YdfH, YhcY and YfiJ; This family includes the histidine kinase-like ATPase (HATPase) domains of various histidine kinases (HKs) of two-component signal transduction systems (TCSs) such as Escherichia coli UhpB, a HK of the UhpB-UhpA TCS, NarQ and NarX, HKs of the NarQ-NarP and NarX-NarL TCSs, respectively, and Bacillus YdfH, YhcY and YfiJ HKs, of the YdfH-YdfI, YhcY-YhcZ and YfiJ-YfiK TCSs, respectively. In addition, it includes Bacillus YxjM, ComP, LiaS and DesK, HKs of the YxjM-YxjML, ComP-ComA, LiaS-LiaR, DesR-DesK TCSs, respectively. Proteins having this HATPase domain have a histidine kinase dimerization and phosphoacceptor domain; some have accessory domains such as GAF, HAMP, PAS and MASE sensor domains.

Pssm-ID: 340394 [Multi-domain] Cd Length: 87 Bit Score: 42.93 E-value: 5.47e-05

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  902 LRRVIQNFLTNAFRYNPEGKVVLGARRVNGQVRIDVWDNGTGIDEDkqqeifeeftrgsqvRSDQGLGLGLAISKGIAHV 981
Cdd:cd16917     1 LYRIVQEALTNALKHAGASRVRVTLSYTADELTLTVVDDGVGFDGP---------------APPGGGGFGLLGMRERAEL 65

                          90       100
                  ....*....|....*....|.
gi 880811338  982 LGHQISMRSWPGQGSVFSITL 1002
Cdd:cd16917    66 LGGTLTIGSRPGGGTRVTARL 86

PAS

pfam00989

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...

628-740

6.05e-05

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. This domain can bind gases (O2, CO and NO), FAD, 4-hydroxycinnamic acid and NAD+ (Matilla et.al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).

Pssm-ID: 395786 [Multi-domain] Cd Length: 113 Bit Score: 43.56 E-value: 6.05e-05

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   628 GLLQGAIEHIGQGIAVIDKQMRLVAWNQRYLELFEFPAGLIqVGRPISDVIRHNaeqglcgpgDPEDHVRRRVYHLEQGT 707
Cdd:pfam00989    1 EDLRAILESLPDGIFVVDEDGRILYVNAAAEELLGLSREEV-IGKSLLDLIPEE---------DDAEVAELLRQALLQGE 70

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|...
gi 880811338   708 RHTS---SRIRPDGRVIEVQGNPMPSG-------GFVMSFTDI 740
Cdd:pfam00989   71 ESRGfevSFRVPDGRPRHVEVRASPVRdaggeilGFLGVLRDI 113

REC_hyHK_CKI1_RcsC-like

cd17546

phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...

1028-1139

6.52e-05

phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators similar to Arabidopsis thaliana CKI1 and Escherichia coli RcsC; This family is composed of hybrid sensor histidine kinases/response regulators that are sensor histidine kinases (HKs) fused with a REC domain, similar to the sensor histidine kinase CKI1 from Arabidopsis thaliana, which is involved in multi-step phosphorelay (MSP) signaling that mediates responses to a variety of important stimuli in plants. MSP involves a signal being transferred from HKs via histidine phosphotransfer proteins (AHP1-AHP5) to nuclear response regulators. The CKI1 REC domain specifically interacts with the downstream signaling protein AHP2, AHP3 and AHP5. The plant MSP system has evolved from the prokaryotic two-component system (TCS), which allows organisms to sense and respond to changes in environmental conditions. This family also includes bacterial hybrid sensor HKs such as Escherichia coli RcsC, which is a component of the Rcs signalling pathway that controls a variety of physiological functions like capsule synthesis, cell division, and motility. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381099 [Multi-domain] Cd Length: 113 Bit Score: 43.23 E-value: 6.52e-05

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1028 ILCV-DNE--REILVGMenlIGRWGCEVKTAVDLVESLKCLDDDwQPDVIFSDYRLDnGRTGLEVLQQCRlRLGDSFEGV 1104
Cdd:cd17546     1 VLVVdDNPvnRKVLKKL---LEKLGYEVDVAENGQEALELLKEE-PFDLVLMDLQMP-VMDGLEATRRIR-ELEGGGRRT 74

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 880811338 1105 II---SAD-RTDDMLAAIKANSFSFIAKPVKPLKLRAVL 1139
Cdd:cd17546    75 PIialTANaLEEDREKCLEAGMDDYLSKPVKLDQLKEVL 113

REC_OmpR_PrrA-like

cd17627

phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...

1028-1142

7.01e-05

phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The Mycobacterium tuberculosis PrrA is part of the PrrA/PrrB two-component system (TCS) that has been implicated in early intracellular multiplication and is essential for viability. Also included in this subfamily is Mycobacterium tuberculosis MprA, part of the MprAB TCS that regulates EspR, a key regulator of the ESX-1 secretion system, and is required for establishment and maintenance of persistent infection in a tissue- and stage-specific fashion. PrrA and MprA belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381142 [Multi-domain] Cd Length: 116 Bit Score: 43.53 E-value: 7.01e-05

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1028 ILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLdDDWQPDVIFSDY---RLDngrtGLEVLQQCRlRLGDSFEGV 1104
Cdd:cd17627     1 ILVVDDDRAVRESLRRSLRFEGYEVETAVDGAEALRVI-SGNRPDAVVLDVmmpRLD----GLEVCRRLR-AAGNDLPIL 74

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 880811338 1105 IISA-DRTDDMLAAIKANSFSFIakpVKPLKLRAVLNRV 1142
Cdd:cd17627    75 VLTArDSVSDRVAGLDAGADDYL---VKPFALEELLARV 110

PRK10815

two-component system sensor histidine kinase PhoQ;

905-973

1.10e-04

two-component system sensor histidine kinase PhoQ;

Pssm-ID: 182754 [Multi-domain] Cd Length: 485 Bit Score: 46.16 E-value: 1.10e-04

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 880811338  905 VIQNFLTNAFRYNPEgKVVLGARRVNGQVRIDVWDNGTGIDEDKQQEIFEEFTRGSQVRSDQGLGLGLA 973
Cdd:PRK10815  382 VMGNVLDNACKYCLE-FVEISARQTDEHLHIVVEDDGPGIPESKRELIFDRGQRADTLRPGQGLGLSVA 449

SLC5sbd_PutP

cd11475

Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Escherichia coli ...

11-453

1.41e-04

Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Escherichia coli PutP catalyzes the Na+-coupled uptake of proline with a stoichiometry of 1:1. The putP gene is part of the put operon; this operon in addition encodes a proline dehydrogenase, allowing the use of proline as a source of nitrogen and/or carbon. This subfamily also includes the Bacillus subtilis Na+/proline cotransporter (OpuE) which has an osmoprotective instead of catabolic role. Expression of the opuE gene is under osmotic control and different sigma factors contribute to its regulation; it is also a putative CcpA-activated gene. This subfamily belongs to the solute carrier 5 (SLC5) transporter family.

Pssm-ID: 271369 Cd Length: 464 Bit Score: 45.58 E-value: 1.41e-04

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   11 LAYLGVLFLIAWY-------------GDRQVRwlsrwrPWIYSLS-IAVYCTSWTFYGTVGQASNNPWSFLPIYLAPILV 76
Cdd:cd11475     5 IVYLLLMLGIGIYsyrktktledyflGGRSLG------PWVTALSaGASDMSGWLLLGLPGAAYASGLSAIWIAIGLILG 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   77 FTLGWRILA-RLILIAKREHITSIADFIAARYG-KSQGLAVAVTVIAVVGILPYIALQLrgITMGLdivapSLAQDFGYq 154
Cdd:cd11475    79 AYLNWLFVAkRLRRYTEKNDSITLPDYLENRFRdKSKLLRILSALIILIFFTIYAAAQL--VAGGK-----LFESLFGI- 150

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  155 DYHVSwFVVGALAIF--TMLFGTRHIDNTEHHRGMMMAVAFeSIVKLAAFLIVG-LFIMYLAMSSDKIDLLDVAASTyeS 231
Cdd:cd11475   151 DYSTG-LLIGAVVVVayTFLGGFLAVSWTDFFQGLLMLLAL-VLVPIVALAALGgLSGLVAALAAIDPGLLSPFGGD--L 226

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  232 PNIPTLIIhtVLTMLAIVCLPRQFH----TMVVENERpqDLHTARWLFPLYLILMGLFVLPIAWAGQGLLPSMP---ADT 304
Cdd:cd11475   227 GAGGLLAI--ISLLAWGLGYFGQPHilvrFMAIRSPK--EIKKARRIAMVWMILFLLGAVLVGLLGRALFPDGLlgdPET 302

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  305 YVISLPMAeganhiaLL-AFLGGT----------SAASGMVIVSTIALaimvSNDLVMPLLlrRMRLTQRThrhfsgLLL 373
Cdd:cd11475   303 VFPVLAQE-------LFpPWLAGIllaailaaimSTADSQLLVCSSAL----TEDLYKAFL--RKEASDKE------LVW 363

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  374 VIRRGLILLLLLGAWLFYQALDTIHSLSAIGFLSFAAIaqFAPALIGGLYWRPGNRKGVYVGLMVG---SVIWLITLMSQ 450
Cdd:cd11475   364 VSRLAVLVIALIALLIALNPPSSVFSLVSFAWAGLGAA--FGPLLLLSLYWKRTTRQGALAGMIAGavtVVVWKLLGLGI 441


                  ...
gi 880811338  451 TSM 453
Cdd:cd11475   442 FGL 444

SLC5sbd_NIS-like_u2

cd11494

uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative ...

4-223

1.72e-04

uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Proteins belonging to the same subfamily as this uncharacterized subgroup include i) NIS, which transports I-, and other anions including ClO4-, SCN-, and Br-, ii) SMVT, which transports biotin, pantothenic acid and lipoate, and iii) the Na(+)/monocarboxylate cotransporters, SMCT1 and 2. SMCT1 is a high-affinity transporter while SMCT2 is a low-affinity transporter. This subgroup belongs to the solute carrier 5 (SLC5) transporter family.

Pssm-ID: 271385 [Multi-domain] Cd Length: 473 Bit Score: 45.67 E-value: 1.72e-04

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338    4 WIVIpvsLAYLGVLFLIAWY-------------GDRQVRWlsrwrpWIYSLSI-AVYCTSWTFYGTVGQASNNPWSFLPI 69
Cdd:cd11494     3 WIVL---VGYLLGILVYGVYkgrgqknqedyflGGRSMPW------WPIGLSImATQASAITFLSAPGQAYSDGMRFVQY 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   70 YLA-PILVFTLgwriLARLILIAKREHITSIADFIAARYGKSQGLavavtviavvgILPYIALQLRGITMGLDIVAPS-- 146
Cdd:cd11494    74 YFGlPLAMIFL----CITFVPVFYKLKVYTAYEYLERRFGLKTRL-----------LTSILFLISRGLATGVTIYAPAii 138

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 880811338  147 LAQDFGYQDYHVSWFVVGALAIFTMLFGTRHIDNTEHHR-GMMMAVAFESIVKLAAFLIVGLF-IMYLAMSSDKIDLLD 223
Cdd:cd11494   139 LSTILGWSLWLTILLIGGITIIYTVLGGIKAVIWTDVIQmVIIWAGLFIAFGLLLKLLPVGFVdALLVAGKSGRLNALD 217

glnL

PRK11073

nitrogen regulation protein NR(II);

890-1002

1.92e-04

nitrogen regulation protein NR(II);

Pssm-ID: 182947 [Multi-domain] Cd Length: 348 Bit Score: 45.07 E-value: 1.92e-04

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  890 PSSLFIHSDPKLLRRVIQNFLTNAFRY--NPEGKVVLGARRV-----NGQ-----VRIDVWDNGTGIDEDKQQEIFEEFT 957
Cdd:PRK11073  226 PSLPELAHDPDQIEQVLLNIVRNALQAlgPEGGTITLRTRTAfqltlHGEryrlaARIDIEDNGPGIPPHLQDTLFYPMV 305

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 880811338  958 RGsqvrSDQGLGLGLAISKGIAHVLGHQISMRSWPGQgSVFSITL 1002
Cdd:PRK11073  306 SG----REGGTGLGLSIARNLIDQHSGKIEFTSWPGH-TEFSVYL 345

REC_2_DhkD-like

cd17580

second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...

1028-1139

2.70e-04

second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal transduction histidine kinase D and similar domains; Dictyostelium discoideum hybrid signal transduction histidine kinase D (DhkD) is a large protein that contains two histidine kinase (HK) and two REC domains on the intracellular side of a single pass transmembrane domain, and extracellular PAS and PAC domains that likely are involved in ligand binding. This model represents the second REC domain and similar domains. DhkD activates the cAMP phosphodiesterase RegA to ensure proper prestalk and prespore patterning, tip formation, and the vertical elongation of the mound into a finger, in Dictyostelium discoideum. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381118 [Multi-domain] Cd Length: 112 Bit Score: 41.67 E-value: 2.70e-04

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1028 ILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDdWQPDVIFSDYRLDnGRTGLEVLQqcRLRLGDSFEGVIIS 1107
Cdd:cd17580     1 ILVVDDNEDAAEMLALLLELEGAEVTTAHSGEEALEAAQR-FRPDVILSDIGMP-GMDGYELAR--RLRELPWLANTPAI 76

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 880811338 1108 A----DRTDDMLAAIKANSFSFIAKPVKPLKLRAVL 1139
Cdd:cd17580    77 AltgyGQPEDRERALEAGFDAHLVKPVDPDELIELI 112

UhpB

COG3851

Signal transduction histidine kinase UhpB, glucose-6-phosphate specific [Signal transduction ...

736-947

1.39e-03

Signal transduction histidine kinase UhpB, glucose-6-phosphate specific [Signal transduction mechanisms];

Pssm-ID: 443060 [Multi-domain] Cd Length: 493 Bit Score: 42.69 E-value: 1.39e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  736 SFTDITVfRQAEQALKDANESLESRVHERTQelekLNHRLVKAtqisdQESQSKSrfLAAVSHD-LMQPLNAARLFASSL 814
Cdd:COG3851   251 SLTGLLL-GAAIQRQRQLNQQLEQELRENRA----LARQLVSA-----EESERRE--IARELHDeIGQNITAIRTQASIL 318

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  815 SEVAKEQEVKQLSSHIESALGAAEDLIGDLLDISR---LESGKLETNIHAIAVHDVLtnlnaefsalaRQQKIEFKmips 891
Cdd:COG3851   319 KRLAPQPEIEQSAQSIESLALRIYDTTRRLLDRLRpavLDELGLEEALRELPRELAF-----------EEPGISCQ---- 383

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 880811338  892 sLFIHSDPKLLR--------RVIQNFLTNAFRYNPEGKVVLGARRVNGQVRIDVWDNGTGIDED 947
Cdd:COG3851   384 -LDLRGDPSLLDdtlqltlyRLVQEALTNILKHAEASQIRISLSQDKRLLSLEIRDDGIGLPPE 446

HATPase_YpdA-YehU-LytS-like

cd16924

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

899-1002

1.51e-03

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli YpdA, YehU, Bacillus subtilis LytS, and some hybrid sensor histidine kinases; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) such as Bacillus subtilis LytS, a HK of the two-component system (TCS) LytS-LytR needed for growth on pyruvate, and Staphylococcus aureus LytS-LytR TCS involved in the adaptation of S. aureus to cationic antimicrobial peptides. It also includes the HATPase domains of Escherichia coli YpdA and YehU, HKs of YpdA-YpdB and YehU-YehTCSs, which are involved together in a nutrient sensing regulatory network. Proteins having this HATPase domain also contain a histidine kinase domain (His-kinase), some having accessory sensor domain(s) such as Cache, HAMP or GAF; some are hybrid sensor histidine kinases as they also contain a REC signal receiver domain.

Pssm-ID: 340401 [Multi-domain] Cd Length: 103 Bit Score: 39.35 E-value: 1.51e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  899 PKLlrrVIQNFLTNAFRYNPE-----GKVVLGARRVNGQVRIDVWDNGTGIDEDkqqeifeeFTRGSQVRSDQGLGLGLA 973
Cdd:cd16924     2 PPF---TLQPLVENAIQHGLSpltdkGVVTISALKEDNHVMIEVEDNGRGIDPK--------VLNILGKKPKEGNGIGLY 70

                          90       100       110
                  ....*....|....*....|....*....|..
gi 880811338  974 -ISKGIAHVLG--HQISMRSWPGQGSVFSITL 1002
Cdd:cd16924    71 nVHQRLILLFGedYGIHIASEPDKGTRITFTI 102

REC_CheY_CheY3

cd19923

phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...

1026-1142

2.00e-03

phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY family proteins; CheY family chemotaxis response regulators (RRs) comprise about 17% of bacterial RRs and almost half of all RRs in archaea. This subfamily contains Vibrio cholerae CheY3, Escherichia coli CheY, and similar CheY family RRs. CheY proteins control bacterial motility and participate in signaling phosphorelays and in protein-protein interactions. CheY RRs contain only the REC domain with no output/effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381150 [Multi-domain] Cd Length: 119 Bit Score: 39.24 E-value: 2.00e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1026 LKILCVDNEREILVGMENLIGRWGCE-VKTAVDLVESLKCLDDDwQPDVIFSDYRLDNgRTGLEVLQQCRL--RLGDSFE 1102
Cdd:cd19923     1 MKVLVVDDFSTMRRIIKNLLKELGFNnVEEAEDGVDALEKLKAG-GFDFVITDWNMPN-MDGLELLKTIRAdgALSHLPV 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 880811338 1103 GVIISADRTDDMLAAIKANSFSFIAKPVKPLKLRAVLNRV 1142
Cdd:cd19923    79 LMVTAEAKKENVIAAAQAGVNNYIVKPFTAATLKEKLEKI 118

PAS

smart00091

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...

629-684

2.42e-03

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels.

Pssm-ID: 214512 Cd Length: 67 Bit Score: 37.76 E-value: 2.42e-03

                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|....*.
gi 880811338    629 LLQGAIEHIGQGIAVIDKQMRLVAWNQRYLELFEFPAGLIqVGRPISDVIRHNAEQ 684
Cdd:smart00091    2 RLRAILESLPDGIFVLDLDGRILYANPAAEELLGYSPEEL-IGKSLLELIHPEDRE 56

SLC5sbd_PanF

cd10327

Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute ...

43-506

2.54e-03

Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; PanF catalyzes the Na+-coupled uptake of extracellular pantothenate for coenzyme A biosynthesis in cells. This subfamily belongs to the solute carrier 5 (SLC5) transporter family.

Pssm-ID: 212037 Cd Length: 472 Bit Score: 41.81 E-value: 2.54e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338   43 IAVYCTSWTFYGTVGQASNN--PWSFLPIYLAPILVFTLGwrILA-RLILIAKREHITSIADFIAARYgKSQGLAVAVTV 119
Cdd:cd10327    51 VATYTSASSFIGGPGAAYKIglGWVLLAMIQVPTGFLTLG--VLGkKFAIIARKINAVTIIDYLRARY-NSKALVVLSSL 127

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  120 IAVVGILPYIALQLRGitmgldiVAPSLAQDFGYqDYHVSWFVVG-ALAIFTMLFGTRHIDNTEHHRGMMMAVAfeSIVK 198
Cdd:cd10327   128 ALIVFFIAAMVAQFIG-------GARLLEAVTGL-SYVTGLLIFGlTVILYTTIGGFRAVALTDAIQGIVMIIG--TVLL 197

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  199 LAAFLIVG----LFIMYLAMSSDKIDLLDVAASTyespNIPTLIIHTVLTMLAIVCLPrqfHT----MVVENERpqDLHT 270
Cdd:cd10327   198 LVGVLAAGggmeAIMATLAEIDPNLLTPFGPGFL----SPPYILSFWVLVGFGVIGLP---QTavrcMGYKDSK--SMHR 268

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  271 ARWlfpLYLILMGLFVLPIAWAG---QGLLPSMPADTYVISLPMAEGANHIALLAFLGGTSAAsgmvIVSTI-ALAIMVS 346
Cdd:cd10327   269 AMI---IGTVVVGFLMLGMHLAGvlgRAVLPDLEVPDKVIPTLALKVLPPWLAGLFLAGPLAA----IMSTVdSQLILAS 341

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  347 ----NDLVMPLLLRRMRLTQRTHRHFS-----GLLLVIRRGLILLLLLGAWLfyqaldtihSLSAIGFLSfaaIAQFAPa 417
Cdd:cd10327   342 saivKDLYLNYKNKEKKTSEKKVKRISliitiILGLLVFLLAINPPDLIVWL---------NLFAFGGLE---AAFFWP- 408

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338  418 LIGGLYWRPGNRKGVYVGLMVGSVIWLItlmsqtsmlagdsesnLLLWMITPpellsswnisSSNWGIVLSIVLNTLCYA 497
Cdd:cd10327   409 LVLGLYWKRANATGALASMVVGLVSYIL----------------ITYLKIKI----------LGLHPIVPSLLLSLIAFI 462


                  ....*....
gi 880811338  498 VVSMSTRPS 506
Cdd:cd10327   463 IVSLATKKP 471

HATPase_EL346-LOV-HK-like

cd16951

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...

901-947

3.35e-03

Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Erythrobacter litoralis blue light-activated histidine kinase 2; This domain family includes the histidine kinase-like ATPase (HATPase) domain of blue light-activated histidine kinase 2 of Erythrobacter litoralis (EL346). Signaling commonly occurs within HK dimers, however EL346 functions as a monomer. Also included in this family are the HATPase domains of ethanolamine utilization sensory transduction histidine kinase (EutW), whereby regulation of ethanolamine, a carbon and nitrogen source for gut bacteria, results in autophosphorylation and subsequent phosphoryl transfer to a response regulator (EutV) containing an RNA-binding domain. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA); some have an accessory PAS sensor domain, while some have an N-terminal histidine kinase domain.

Pssm-ID: 340427 [Multi-domain] Cd Length: 131 Bit Score: 38.94 E-value: 3.35e-03

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 880811338  901 LLRRVIQNFLTNAFRYNPEGKVVLGARRVNGQVRIDVWDNGTGIDED 947
Cdd:cd16951    43 VVNELLQNALKHAFSDREGGTITIRSVVDGDYLRITVIDDGVGLPQD 89

REC_D1_PleD-like

cd17538

first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...

1027-1130

4.98e-03

first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar domains; PleD contains a REC domain (D1) with the phosphorylatable aspartate, a REC-like adaptor domain (D2), and the enzymatic diguanylate cyclase (DGC) domain, also called the GGDEF domain according to a conserved sequence motif, as its output domain. The GGDEF-containing PleD response regulators are global regulators of cell metabolism in some important human pathogens. This model describes D1 of PleD and similar domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381093 [Multi-domain] Cd Length: 104 Bit Score: 37.86 E-value: 4.98e-03

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 880811338 1027 KILCVDNEREILVGMENLIGRWGCEVKTAVDLVESLKCLDDDwQPDVIFSDYRLDnGRTGLEVLQQCRLRLGDSFEGVI- 1105
Cdd:cd17538     1 KILVVDDEPANRELLEALLSAEGYEVLTADSGQEALALAEEE-LPDLILLDVMMP-GMDGFEVCRRLKEDPETRHIPVIm 78

                          90       100
                  ....*....|....*....|....*.
gi 880811338 1106 ISA-DRTDDMLAAIKANSFSFIAKPV 1130
Cdd:cd17538    79 ITAlDDREDRIRGLEAGADDFLSKPI 104

PAS_8

pfam13188

PAS domain; PAS domains are involved in many signalling proteins where they are used as a ...

629-679

5.18e-03

PAS domain; PAS domains are involved in many signalling proteins where they are used as a signal sensor domain. PAS domains appear in archaea, bacteria and eukaryotes. Several PAS-domain proteins are known to detect their signal by way of an associated cofactor. Heme, flavin, and a 4-hydroxycinnamyl chromophore are used in different proteins. This domain recognizes oxygen and CO (Matilla et al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).

Pssm-ID: 463802 [Multi-domain] Cd Length: 65 Bit Score: 36.76 E-value: 5.18e-03

                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 880811338   629 LLQGAIEHIGQGIAVIDKQMRLVAWNQRYLELFefpaGLIQVGRPISDVIR 679
Cdd:pfam13188    2 RLRALFESSPDGILVLDEGGRIIYVNPAALELL----GYELLGELLGELLD 48

Blast search parameters

Data Source:	Precalculated data, version = cdd.v.3.21
Preset Options:	Database: CDSEARCH/cdd Low complexity filter: no Composition Based Adjustment: yes E-value threshold: 0.01