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Conserved domains on  [gi|506428315|ref|WP_015948034|]
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PAS domain S-box protein [Desulfatibacillum aliphaticivorans]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
NtrB COG3852
Signal transduction histidine kinase NtrB, nitrogen specific [Signal transduction mechanisms];
419-817 1.15e-50

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


:

Pssm-ID: 443061 [Multi-domain]  Cd Length: 361  Bit Score: 181.97  E-value: 1.15e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 419 RAKKEWERTFDAVPDLIAIIDSGHKIVRVNKAMAAAFGTTPDKMVGASCTQVVHCTSGPPDFCPHVLSlTDGKYHDAEV- 497
Cdd:COG3852    4 ESEELLRAILDSLPDAVIVLDADGRITYVNPAAERLLGLSAEELLGRPLAELFPEDSPLRELLERALA-EGQPVTEREVt 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 498 --YDDNLGAHLHVSTSPIRDAEGViTASVHIMRDISDRKRAEAELakthaklIETARQIGMAEVATGVLHNVGNVLNSVN 575
Cdd:COG3852   83 lrRKDGEERPVDVSVSPLRDAEGE-GGVLLVLRDITERKRLEREL-------RRAEKLAAVGELAAGLAHEIRNPLTGIR 154

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 576 ISTEVMQRKVKDSRINDLMEVMnlvkehedslphflfhdsqgreilpflhdlslhlaeeqnalLNEINELSGYTSHISEI 655
Cdd:COG3852  155 GAAQLLERELPDDELREYTQLI-----------------------------------------IEEADRLNNLVDRLLSF 193

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 656 VKTQqewskvPGLVEPLSLKDVVEEVLTINAAGLKRNtIQVVRDYQP-VPDVAADRRKLTQILMNLVSNAGHALNSTAEe 734
Cdd:COG3852  194 SRPR------PPEREPVNLHEVLERVLELLRAEAPKN-IRIVRDYDPsLPEVLGDPDQLIQVLLNLVRNAAEAMPEGGT- 265

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 735 eriLTVSLFSDS---------PGFTSVRVTDNGEGIAKENMSRLFRYGFTTKKKGHGFGLHSCALAAQEMGGSLFAESEg 805
Cdd:COG3852  266 ---ITIRTRVERqvtlgglrpRLYVRIEVIDNGPGIPEEILDRIFEPFFTTKEKGTGLGLAIVQKIVEQHGGTIEVESE- 341

                        410
                 ....*....|..
gi 506428315 806 PGQGASFTMRIP 817
Cdd:COG3852  342 PGKGTTFRIYLP 353
PAS COG2202
PAS domain [Signal transduction mechanisms];
284-540 5.74e-40

PAS domain [Signal transduction mechanisms];


:

Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 148.25  E-value: 5.74e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 284 AQEALRKSENLLQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFRKNHPQYLRSYFSTGKP 363
Cdd:COG2202    2 AEEALEESERRLRALVESSPDAIIITDLDGRILYVNPAFERLTGYSAEELLGKTLRDLLPPEDDDEFLELLRAALAGGGV 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 364 DaamgkILELPAMRGDGAVFPMEISLSS--GEADSKSFVVGIARDISERKRTEENIIRAKKEWERTFDAVPDLIAIIDSG 441
Cdd:COG2202   82 W-----RGELRNRRKDGSLFWVELSISPvrDEDGEITGFVGIARDITERKRAEEALRESEERLRLLVENAPDGIFVLDLD 156

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 442 HKIVRVNKAMAAAFGTTPDKMVGASCTQVVHCTSGPPDFCP--HVLSLTDGKYHDAEVYDDNLGAHLHVSTSPIRDA-EG 518
Cdd:COG2202  157 GRILYVNPAAEELLGYSPEELLGKSLLDLLHPEDRERLLELlrRLLEGGRESYELELRLKDGDGRWVWVEASAVPLRdGG 236

                        250       260
                 ....*....|....*....|..
gi 506428315 519 VITASVHIMRDISDRKRAEAEL 540
Cdd:COG2202  237 EVIGVLGIVRDITERKRAEEAL 258
COG4192 super family cl34737
Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal ...
 157-297 2.49e-10

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


The actual alignment was detected with superfamily member COG4192:

Pssm-ID: 443346 [Multi-domain]  Cd Length: 640  Bit Score: 63.94  E-value: 2.49e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 157 QENSLRIAKQEliTSLDSLARIEQRNLRDFSQSAAEIASKTKLLILAIAIGALIFAVFqgIA---VSGSISKPLDNLVKA 233
Cdd:COG4192  286 EENNSILEQLR--TQISGLVGNSREQLVALNQETAQLVQQSGILLLAIALLSLLLAVL--INyfyVRRRLVKRLNALSDA 361

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 506428315 234 AMEIGKGNLNVSIEEKGDVEIVRMGEALNRMIQNMEESKKRLID-INELESAQEALRKSEN-LLQT 297
Cdd:COG4192  362 MAAIAAGDLDVPIPVDGNDEIGRIARLLRVFRDQAIEKTQELETeIEERKRIEKNLRQTQDeLIQA 427
 
Name Accession Description Interval E-value
NtrB COG3852
Signal transduction histidine kinase NtrB, nitrogen specific [Signal transduction mechanisms];
419-817 1.15e-50

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


Pssm-ID: 443061 [Multi-domain]  Cd Length: 361  Bit Score: 181.97  E-value: 1.15e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 419 RAKKEWERTFDAVPDLIAIIDSGHKIVRVNKAMAAAFGTTPDKMVGASCTQVVHCTSGPPDFCPHVLSlTDGKYHDAEV- 497
Cdd:COG3852    4 ESEELLRAILDSLPDAVIVLDADGRITYVNPAAERLLGLSAEELLGRPLAELFPEDSPLRELLERALA-EGQPVTEREVt 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 498 --YDDNLGAHLHVSTSPIRDAEGViTASVHIMRDISDRKRAEAELakthaklIETARQIGMAEVATGVLHNVGNVLNSVN 575
Cdd:COG3852   83 lrRKDGEERPVDVSVSPLRDAEGE-GGVLLVLRDITERKRLEREL-------RRAEKLAAVGELAAGLAHEIRNPLTGIR 154

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 576 ISTEVMQRKVKDSRINDLMEVMnlvkehedslphflfhdsqgreilpflhdlslhlaeeqnalLNEINELSGYTSHISEI 655
Cdd:COG3852  155 GAAQLLERELPDDELREYTQLI-----------------------------------------IEEADRLNNLVDRLLSF 193

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 656 VKTQqewskvPGLVEPLSLKDVVEEVLTINAAGLKRNtIQVVRDYQP-VPDVAADRRKLTQILMNLVSNAGHALNSTAEe 734
Cdd:COG3852  194 SRPR------PPEREPVNLHEVLERVLELLRAEAPKN-IRIVRDYDPsLPEVLGDPDQLIQVLLNLVRNAAEAMPEGGT- 265

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 735 eriLTVSLFSDS---------PGFTSVRVTDNGEGIAKENMSRLFRYGFTTKKKGHGFGLHSCALAAQEMGGSLFAESEg 805
Cdd:COG3852  266 ---ITIRTRVERqvtlgglrpRLYVRIEVIDNGPGIPEEILDRIFEPFFTTKEKGTGLGLAIVQKIVEQHGGTIEVESE- 341

                        410
                 ....*....|..
gi 506428315 806 PGQGASFTMRIP 817
Cdd:COG3852  342 PGKGTTFRIYLP 353
PAS COG2202
PAS domain [Signal transduction mechanisms];
284-540 5.74e-40

PAS domain [Signal transduction mechanisms];


Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 148.25  E-value: 5.74e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 284 AQEALRKSENLLQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFRKNHPQYLRSYFSTGKP 363
Cdd:COG2202    2 AEEALEESERRLRALVESSPDAIIITDLDGRILYVNPAFERLTGYSAEELLGKTLRDLLPPEDDDEFLELLRAALAGGGV 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 364 DaamgkILELPAMRGDGAVFPMEISLSS--GEADSKSFVVGIARDISERKRTEENIIRAKKEWERTFDAVPDLIAIIDSG 441
Cdd:COG2202   82 W-----RGELRNRRKDGSLFWVELSISPvrDEDGEITGFVGIARDITERKRAEEALRESEERLRLLVENAPDGIFVLDLD 156

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 442 HKIVRVNKAMAAAFGTTPDKMVGASCTQVVHCTSGPPDFCP--HVLSLTDGKYHDAEVYDDNLGAHLHVSTSPIRDA-EG 518
Cdd:COG2202  157 GRILYVNPAAEELLGYSPEELLGKSLLDLLHPEDRERLLELlrRLLEGGRESYELELRLKDGDGRWVWVEASAVPLRdGG 236

                        250       260
                 ....*....|....*....|..
gi 506428315 519 VITASVHIMRDISDRKRAEAEL 540
Cdd:COG2202  237 EVIGVLGIVRDITERKRAEEAL 258
PRK11360 PRK11360
two-component system sensor histidine kinase AtoS;
433-822 1.37e-30

two-component system sensor histidine kinase AtoS;


Pssm-ID: 236901 [Multi-domain]  Cd Length: 607  Bit Score: 128.16  E-value: 1.37e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 433 DLIAIIDSGHKIVRVNKAMAAAFGTTPDKMVGASCTQVVhctSGPPDFCPHVL-SLTDGKYH-DAEVYDDNL--GAHLHV 508
Cdd:PRK11360 273 DGVIAIDRQGKITTMNPAAEVITGLQRHELVGKPYSELF---PPNTPFASPLLdTLEHGTEHvDLEISFPGRdrTIELSV 349

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 509 STSPIRDAEGVITASVHIMRDISDRKRAEAELAKTHaklietaRQIGMAEVATGVLHNVGNVLNSVNISTEVMQRKVKDs 588
Cdd:PRK11360 350 STSLLHNTHGEMIGALVIFSDLTERKRLQRRVARQE-------RLAALGELVAGVAHEIRNPLTAIRGYVQIWRQQTSD- 421

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 589 rindlmevmnlvKEHEDSLphflfhdsqgreilpflhdlslhlaeeqNALLNEINELSGYTSHISEIVK-TQQEWSKVpg 667
Cdd:PRK11360 422 ------------PPSQEYL----------------------------SVVLREVDRLNKVIDQLLEFSRpRESQWQPV-- 459

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 668 lveplSLKDVVEEVLTINAAGLKRNTIQVVRDYQP-VPDVAADRRKLTQILMNLVSNAGHALNSTAEeeriLTVSLFSDS 746
Cdd:PRK11360 460 -----SLNALVEEVLQLFQTAGVQARVDFETELDNeLPPIWADPELLKQVLLNILINAVQAISARGK----IRIRTWQYS 530

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 747 PGFTSVRVTDNGEGIAKENMSRLFRYGFTTKKKGHGFGLhscALaAQEM----GGSLFAESEgPGQGASFTMRIPSNDGG 822
Cdd:PRK11360 531 DGQVAVSIEDNGCGIDPELLKKIFDPFFTTKAKGTGLGL---AL-SQRIinahGGDIEVESE-PGVGTTFTLYLPINPQG 605
HATPase_c smart00387
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
 708-817 6.34e-22

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


Pssm-ID: 214643 [Multi-domain]  Cd Length: 111  Bit Score: 91.56  E-value: 6.34e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315   708 ADRRKLTQILMNLVSNAghaLNSTAEEERIlTVSLfSDSPGFTSVRVTDNGEGIAKENMSRLFRYGFTTKK-----KGHG 782
Cdd:smart00387   1 GDPDRLRQVLSNLLDNA---IKYTPEGGRI-TVTL-ERDGDHVEITVEDNGPGIPPEDLEKIFEPFFRTDKrsrkiGGTG 75

                           90       100       110
                   ....*....|....*....|....*....|....*
gi 506428315   783 FGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:smart00387  76 LGLSIVKKLVELHGGEISVESE-PGGGTTFTITLP 109
sensory_box TIGR00229
PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain ...
 291-417 6.50e-22

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: 91.97  E-value: 6.50e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315  291 SENLLQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFRKNHPQYLRSYFSTGKPDAAMGKI 370
Cdd:TIGR00229   1 SEERYRAIFESSPDAIIVIDLEGNILYVNPAFEEIFGYSAEELIGRNVLELIPEEDREEVRERIERRLEGEPEPVSEERR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 506428315  371 LElpamRGDGAVFPMEISLSSGEADS-KSFVVGIARDISERKRTEENI 417
Cdd:TIGR00229  81 VR----RKDGSEIWVEVSVSPIRTNGgELGVVGIVRDITERKEAEEAL 124
HATPase_c pfam02518
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the ...
 708-817 1.69e-18

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: 81.65  E-value: 1.69e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315  708 ADRRKLTQILMNLVSNAghaLNSTAEEERIlTVSLfsDSPGFTSVRVTDNGEGIAKENMSRLFRyGFTTKKK----GHGF 783
Cdd:pfam02518   1 GDELRLRQVLSNLLDNA---LKHAAKAGEI-TVTL--SEGGELTLTVEDNGIGIPPEDLPRIFE-PFSTADKrgggGTGL 73

                          90       100       110
                  ....*....|....*....|....*....|....
gi 506428315  784 GLHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:pfam02518  74 GLSIVRKLVELLGGTITVESE-PGGGTTVTLTLP 106
HATPase_TmoS-FixL-DctS-like cd16920
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...
 713-817 2.92e-17

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: 77.82  E-value: 2.92e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 713 LTQILMNLVSNAGHALNSTAEEERILTVSLFSDSPGFTSVRVTDNGEGIAKENMSRLFRYGFTTKKKGHGFGLHSCALAA 792
Cdd:cd16920    1 IQQVLINLVRNGIEAMSEGGCERRELTIRTSPADDRAVTISVKDTGPGIAEEVAGQLFDPFYTTKSEGLGMGLSICRSII 80

                         90       100
                 ....*....|....*....|....*
gi 506428315 793 QEMGGSLFAESEGPGqGASFTMRIP 817
Cdd:cd16920   81 EAHGGRLSVESPAGG-GATFQFTLP 104
PRK13560 PRK13560
hypothetical protein; Provisional
 277-540 1.96e-13

hypothetical protein; Provisional


Pssm-ID: 106506 [Multi-domain]  Cd Length: 807  Bit Score: 74.32  E-value: 1.96e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 277 DINELESAQEALRKSENLLQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFRKNHPQylrs 356
Cdd:PRK13560 188 DITERKRAEERIDEALHFLQQLLDNIADPAFWKDEDAKVFGCNDAACLACGFRREEIIGMSIHDFAPAQPADDYQE---- 263

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 357 yFSTGKPDAAMGKILELPAMRGDGAVFPMEISLSSGEADSKSF----VVGIARDISERKRTEENIIRAKKEWERTFDAVP 432
Cdd:PRK13560 264 -ADAAKFDADGSQIIEAEFQNKDGRTRPVDVIFNHAEFDDKENhcagLVGAITDISGRRAAERELLEKEDMLRAIIEAAP 342

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 433 DLIAIIDSGHKIVRVNKAMAaafgttpDKMVGASCTQVVH---------------CTS-------GPP---DFCPHVLSL 487
Cdd:PRK13560 343 IAAIGLDADGNICFVNNNAA-------ERMLGWSAAEVMGkplpgmdpelneefwCGDfqewypdGRPmafDACPMAKTI 415

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 506428315 488 TDGKYHDA-EVY---DDNLGAHLHVSTSPIRDAEGVITASVHIMRDISDRKRAEAEL 540
Cdd:PRK13560 416 KGGKIFDGqEVLierEDDGPADCSAYAEPLHDADGNIIGAIALLVDITERKQVEEQL 472
PAS pfam00989
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
 293-407 2.28e-12

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: 64.36  E-value: 2.28e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315  293 NLLQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFRKNHPQYLRSYFSTGKPDAAMGKILE 372
Cdd:pfam00989   1 EDLRAILESLPDGIFVVDEDGRILYVNAAAEELLGLSREEVIGKSLLDLIPEEDDAEVAELLRQALLQGEESRGFEVSFR 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 506428315  373 LPamrgDGAVFPMEISLSS--GEADSKSFVVGIARDI 407
Cdd:pfam00989  81 VP----DGRPRHVEVRASPvrDAGGEILGFLGVLRDI 113
PAS cd00130
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 302-407 5.33e-12

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. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction.


Pssm-ID: 238075 [Multi-domain]  Cd Length: 103  Bit Score: 63.04  E-value: 5.33e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 302 TRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFRKNHPQYLRSYFSTGKPdaamgKILELPAMRGDGA 381
Cdd:cd00130    1 LPDGVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLSGGEP-----VTLEVRLRRKDGS 75

                         90       100
                 ....*....|....*....|....*...
gi 506428315 382 VFPMEISLSS--GEADSKSFVVGIARDI 407
Cdd:cd00130   76 VIWVLVSLTPirDEGGEVIGLLGVVRDI 103
PAS smart00091
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 294-356 7.38e-11

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: 58.56  E-value: 7.38e-11
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 506428315   294 LLQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFRKNHPQYLRS 356
Cdd:smart00091   2 RLRAILESLPDGIFVLDLDGRILYANPAAEELLGYSPEELIGKSLLELIHPEDRERVQEALQR 64
COG4192 COG4192
Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal ...
 157-297 2.49e-10

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


Pssm-ID: 443346 [Multi-domain]  Cd Length: 640  Bit Score: 63.94  E-value: 2.49e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 157 QENSLRIAKQEliTSLDSLARIEQRNLRDFSQSAAEIASKTKLLILAIAIGALIFAVFqgIA---VSGSISKPLDNLVKA 233
Cdd:COG4192  286 EENNSILEQLR--TQISGLVGNSREQLVALNQETAQLVQQSGILLLAIALLSLLLAVL--INyfyVRRRLVKRLNALSDA 361

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 506428315 234 AMEIGKGNLNVSIEEKGDVEIVRMGEALNRMIQNMEESKKRLID-INELESAQEALRKSEN-LLQT 297
Cdd:COG4192  362 MAAIAAGDLDVPIPVDGNDEIGRIARLLRVFRDQAIEKTQELETeIEERKRIEKNLRQTQDeLIQA 427
HAMP pfam00672
HAMP domain;
219-270 1.71e-09

HAMP domain;


Pssm-ID: 459898 [Multi-domain]  Cd Length: 53  Bit Score: 54.17  E-value: 1.71e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 506428315  219 VSGSISKPLDNLVKAAMEIGKGNLNVSIEEKGDVEIVRMGEALNRMIQNMEE 270
Cdd:pfam00672   2 LARRILRPLRRLAEAARRIASGDLDVRLPVSGRDEIGELARAFNQMAERLRE 53
HAMP smart00304
HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain;
222-271 5.87e-08

HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain;


Pssm-ID: 197640 [Multi-domain]  Cd Length: 53  Bit Score: 49.55  E-value: 5.87e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 506428315   222 SISKPLDNLVKAAMEIGKGNLNVSIEEKGDVEIVRMGEALNRMIQNMEES 271
Cdd:smart00304   2 RLLRPLRRLAEAAQRIADGDLTVRLPVDGRDEIGELARAFNEMADRLEET 51
sensory_box TIGR00229
PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain ...
 424-540 6.86e-08

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: 51.91  E-value: 6.86e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315  424 WERTFDAVPDLIAIIDSGHKIVRVNKAMAAAFGTTPDKMVGASCTQVVHctsgPPDFCPHVL--------------SLTD 489
Cdd:TIGR00229   5 YRAIFESSPDAIIVIDLEGNILYVNPAFEEIFGYSAEELIGRNVLELIP----EEDREEVRErierrlegepepvsEERR 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 506428315  490 GKYHDAEVYddnlgaHLHVSTSPIRDAEGViTASVHIMRDISDRKRAEAEL 540
Cdd:TIGR00229  81 VRRKDGSEI------WVEVSVSPIRTNGGE-LGVVGIVRDITERKEAEEAL 124
HAMP cd06225
Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain; ...
 224-267 1.23e-07

Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain; HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The structure of the Af1503 HAMP dimer from Archaeoglobus fulgidus has been solved using nuclear magnetic resonance, revealing a parallel four-helix bundle; this structure has been confirmed by cross-linking analysis of HAMP domains from the Escherichia coli aerotaxis receptor Aer. It has been suggested that the four-helix arrangement can rotate between the unusually packed conformation observed in the NMR structure and a canonical coiled-coil arrangement. Such rotation may coincide with signal transduction, but a common mechanism by which HAMP domains relay a variety of input signals has yet to be established.


Pssm-ID: 381743 [Multi-domain]  Cd Length: 45  Bit Score: 48.59  E-value: 1.23e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 506428315 224 SKPLDNLVKAAMEIGKGNLNVSIEEKGDVEIVRMGEALNRMIQN 267
Cdd:cd06225    1 TRPLRRLTEAARRIAEGDLDVRVPVRSKDEIGELARAFNQMAER 44
envZ PRK09467
osmolarity sensor protein; Provisional
 199-270 8.52e-04

osmolarity sensor protein; Provisional


Pssm-ID: 236531 [Multi-domain]  Cd Length: 435  Bit Score: 42.59  E-value: 8.52e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 506428315 199 LLILAIAI-GALIFAVFQgiavsgsiSKPLDNLVKAAMEIGKGNLNVSIEEKGDVEIVRMGEALNRM---IQNMEE 270
Cdd:PRK09467 160 LAIGLLSVaGGWLFIRIQ--------NRPLVALEHAALQVGKGEIPPPLREYGASEVRSVTRAFNQMaagIKQLED 227
 
Name Accession Description Interval E-value
NtrB COG3852
Signal transduction histidine kinase NtrB, nitrogen specific [Signal transduction mechanisms];
419-817 1.15e-50

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


Pssm-ID: 443061 [Multi-domain]  Cd Length: 361  Bit Score: 181.97  E-value: 1.15e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 419 RAKKEWERTFDAVPDLIAIIDSGHKIVRVNKAMAAAFGTTPDKMVGASCTQVVHCTSGPPDFCPHVLSlTDGKYHDAEV- 497
Cdd:COG3852    4 ESEELLRAILDSLPDAVIVLDADGRITYVNPAAERLLGLSAEELLGRPLAELFPEDSPLRELLERALA-EGQPVTEREVt 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 498 --YDDNLGAHLHVSTSPIRDAEGViTASVHIMRDISDRKRAEAELakthaklIETARQIGMAEVATGVLHNVGNVLNSVN 575
Cdd:COG3852   83 lrRKDGEERPVDVSVSPLRDAEGE-GGVLLVLRDITERKRLEREL-------RRAEKLAAVGELAAGLAHEIRNPLTGIR 154

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 576 ISTEVMQRKVKDSRINDLMEVMnlvkehedslphflfhdsqgreilpflhdlslhlaeeqnalLNEINELSGYTSHISEI 655
Cdd:COG3852  155 GAAQLLERELPDDELREYTQLI-----------------------------------------IEEADRLNNLVDRLLSF 193

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 656 VKTQqewskvPGLVEPLSLKDVVEEVLTINAAGLKRNtIQVVRDYQP-VPDVAADRRKLTQILMNLVSNAGHALNSTAEe 734
Cdd:COG3852  194 SRPR------PPEREPVNLHEVLERVLELLRAEAPKN-IRIVRDYDPsLPEVLGDPDQLIQVLLNLVRNAAEAMPEGGT- 265

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 735 eriLTVSLFSDS---------PGFTSVRVTDNGEGIAKENMSRLFRYGFTTKKKGHGFGLHSCALAAQEMGGSLFAESEg 805
Cdd:COG3852  266 ---ITIRTRVERqvtlgglrpRLYVRIEVIDNGPGIPEEILDRIFEPFFTTKEKGTGLGLAIVQKIVEQHGGTIEVESE- 341

                        410
                 ....*....|..
gi 506428315 806 PGQGASFTMRIP 817
Cdd:COG3852  342 PGKGTTFRIYLP 353
NtrY COG5000
Signal transduction histidine kinase NtrY involved in nitrogen fixation and metabolism ...
 199-817 1.08e-48

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: 178.23  E-value: 1.08e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 199 LLILAIAIGALIFAVFQGIAVSGSISKPLDNLVKAAMEIGKGNLNVSIEEKGDVEIVRMGEALNRMIQnmeeskkrlidi 278
Cdd:COG5000    9 LLLLLIALLLLLLALWLALLLARRLTRPLRRLAEATRAVAAGDLSVRLPVTGDDEIGELARAFNRMTD------------ 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 279 nELESAQEALRKSENLLQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFrknHPQYLRSYF 358
Cdd:COG5000   77 -QLKEQREELEERRRYLETILENLPAGVIVLDADGRITLANPAAERLLGIPLEELIGKPLEELLPELD---LAELLREAL 152

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 359 STGKPDaamgkilelpamrgdgavfpmEISLSSGEadsksfvvgiardiserkrteeniirakkewertfdavpdliaii 438
Cdd:COG5000  153 ERGWQE---------------------EIELTRDG--------------------------------------------- 166

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 439 dsghkivrvnkamaaafgttpdkmvgasctqvvhctsgppdfcphvlsltdgkyhdaevyddnlGAHLHVSTSPIRDAEG 518
Cdd:COG5000  167 ----------------------------------------------------------------RRTLLVRASPLRDDGY 182

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 519 VITasvhiMRDISDRKRAEaelakthaklietaRQIGMAEVATGVLHNVGNVLNSVNISTEVMQRKVKDSRINDlmevmn 598
Cdd:COG5000  183 VIV-----FDDITELLRAE--------------RLAAWGELARRIAHEIKNPLTPIQLSAERLRRKLADKLEED------ 237

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 599 lvkehedslphflfhdsqgREILpflhDLSLHLAEEQNALLNEI-NELSGYtSHISEIVKtqqewskvpglvEPLSLKDV 677
Cdd:COG5000  238 -------------------REDL----ERALDTIIRQVDRLKRIvDEFLDF-ARLPEPQL------------EPVDLNEL 281

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 678 VEEVLTINAAGLKRNTIQVVRDYQP-VPDVAADRRKLTQILMNLVSNAGHALnstaEEERILTVSLFSDsPGFTSVRVTD 756
Cdd:COG5000  282 LREVLALYEPALKEKDIRLELDLDPdLPEVLADRDQLEQVLINLLKNAIEAI----EEGGEIEVSTRRE-DGRVRIEVSD 356

                        570       580       590       600       610       620
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 506428315 757 NGEGIAKENMSRLFRYGFTTKKKGHGFGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:COG5000  357 NGPGIPEEVLERIFEPFFTTKPKGTGLGLAIVKKIVEEHGGTIELESR-PGGGTTFTIRLP 416
KinE COG5809
Sporulation sensor histidine kinase E [Cell cycle control, cell division, chromosome ...
 282-817 2.58e-44

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: 167.07  E-value: 2.58e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 282 ESAQEALRKSENLLQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFRKNHpQYLRSYFSTG 361
Cdd:COG5809    4 SKMELQLRKSEQRFRSLFENAPDAILILDLEGKILKVNPAAERIFGYTEDELLGTNILDFLHPDDEKEL-REILKLLKEG 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 362 KPDAamGKILELPAMRGDGAVFPMEISLSSGEADSKSFVVGIARDISERKRTEENIIRAKKEWERTFDAVPDLIAIIDSG 441
Cdd:COG5809   83 ESRD--ELEFELRHKNGKRLEFSSKLSPIFDQNGDIEGMLAISRDITERKRMEEALRESEEKFRLIFNHSPDGIIVTDLD 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 442 HKIVRVNKAMAAAFGTTPDKMVGASCTQVVHCTSGPPDFCPHVLSLTDGKYHDAEVYD---DNLGAHLHVSTSPIRDAEG 518
Cdd:COG5809  161 GRIIYANPAACKLLGISIEELIGKSILELIHSDDQENVAAFISQLLKDGGIAQGEVRFwtkDGRWRLLEASGAPIKKNGE 240

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 519 VITAsVHIMRDISDRKRAEAELAKThakliETARQIGmaEVATGVLHNVGNVLNSVNISTEVMQRkvkdsrindlmevmn 598
Cdd:COG5809  241 VDGI-VIIFRDITERKKLEELLRKS-----EKLSVVG--ELAAGIAHEIRNPLTSLKGFIQLLKD--------------- 297

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 599 lvKEHEDSLPHFlfhdsqgrEILpflhdLSlhlaeEQNALLNEINELSGytshiseIVKTQQewskvpGLVEPLSLKDVV 678
Cdd:COG5809  298 --TIDEEQKTYL--------DIM-----LS-----ELDRIESIISEFLV-------LAKPQA------IKYEPKDLNTLI 344

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 679 EEVLTINAAGLKRNTIQVVRDY-QPVPDVAADRRKLTQILMNLVSNAGHALNSTAEeeriLTVSLFSDSPGFTSVRVTDN 757
Cdd:COG5809  345 EEVIPLLQPQALLKNVQIELELeDDIPDILGDENQLKQVFINLLKNAIEAMPEGGN----ITIETKAEDDDKVVISVTDE 420

                        490       500       510       520       530       540
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 758 GEGIAKENMSRLFRYGFTTKKKGHGFGLHSCALAAQEMGGSLFAESEGpGQGASFTMRIP 817
Cdd:COG5809  421 GCGIPEERLKKLGEPFYTTKEKGTGLGLMVSYKIIEEHGGKITVESEV-GKGTTFSITLP 479
KinA COG5805
Sporulation sensor histidine kinase A (Stage II sporulation protein SpoIIF/SpoIIJ) [Cell cycle ...
 264-817 3.21e-41

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: 158.36  E-value: 3.21e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 264 MIQNMEES-----KKRLIDINELESAQEALRKSENLLqTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPL 338
Cdd:COG5805    1 MSTKLYDFihevkKDGTPIWINNEVLRMAIEITEELE-TILENLPDAIIAVNREGKVIYINPAMEKLLGYTSEEIIGKTI 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 339 EPLMPPEFRKNHPQYlrsyFSTGKPDAAMGKILELpaMRGDGAVFPMEISLSSGEADSKSFVVGIARDISERKRTEENII 418
Cdd:COG5805   80 FDFLEKEYHYRVKTR----IERLQKGYDVVMIEQI--YCKDGELIYVEVKLFPIYNQNGQAAILALRDITKKKKIEEILQ 153

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 419 RAKKEWERTFDAVPDLIAIIDSGHKIVRVNKAMAAAFGTTPDKMVGASCTQVVHCtSGPPDFCPHVLSLTD----GKYHD 494
Cdd:COG5805  154 EQEERLQTLIENSPDLICVIDTDGRILFINESIERLFGAPREELIGKNLLELLHP-CDKEEFKERIESITEvwqeFIIER 232

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 495 AEVYDDNLGAHLHVSTSPIRDAEGVITASVHIMRDISDRKRAEAELAKThakliETARQIGmaEVATGVLHNVGNVLNSV 574
Cdd:COG5805  233 EIITKDGRIRYFEAVIVPLIDTDGSVKGILVILRDITEKKEAEELMARS-----EKLSIAG--QLAAGIAHEIRNPLTSI 305

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 575 NISTEVMQ-RKVKDSRINDLMevmnlvkehedslphflfhdsqgreilpflhdlslhlaeeqnalLNEINELSGYTSHIS 653
Cdd:COG5805  306 KGFLQLLQpGIEDKEEYFDIM--------------------------------------------LSELDRIESIISEFL 341

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 654 EIVKTQQEwskvpgLVEPLSLKDVVEEVLTINAAGLKRNTIQVVRDY-QPVPDVAADRRKLTQILMNLVSNAGHALNSta 732
Cdd:COG5805  342 ALAKPQAV------NKEKENINELIQDVVTLLETEAILHNIQIRLELlDEDPFIYCDENQIKQVFINLIKNAIEAMPN-- 413

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 733 eeERILTVSLFSDSPgFTSVRVTDNGEGIAKENMSRLFRYGFTTKKKGHGFGLHSCALAAQEMGGSLFAESEgPGQGASF 812
Cdd:COG5805  414 --GGTITIHTEEEDN-SVIIRVIDEGIGIPEERLKKLGEPFFTTKEKGTGLGLMVSYKIIENHNGTIDIDSK-VGKGTTF 489


                 ....*
gi 506428315 813 TMRIP 817
Cdd:COG5805  490 TITLP 494
PAS COG2202
PAS domain [Signal transduction mechanisms];
284-540 5.74e-40

PAS domain [Signal transduction mechanisms];


Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 148.25  E-value: 5.74e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 284 AQEALRKSENLLQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFRKNHPQYLRSYFSTGKP 363
Cdd:COG2202    2 AEEALEESERRLRALVESSPDAIIITDLDGRILYVNPAFERLTGYSAEELLGKTLRDLLPPEDDDEFLELLRAALAGGGV 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 364 DaamgkILELPAMRGDGAVFPMEISLSS--GEADSKSFVVGIARDISERKRTEENIIRAKKEWERTFDAVPDLIAIIDSG 441
Cdd:COG2202   82 W-----RGELRNRRKDGSLFWVELSISPvrDEDGEITGFVGIARDITERKRAEEALRESEERLRLLVENAPDGIFVLDLD 156

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 442 HKIVRVNKAMAAAFGTTPDKMVGASCTQVVHCTSGPPDFCP--HVLSLTDGKYHDAEVYDDNLGAHLHVSTSPIRDA-EG 518
Cdd:COG2202  157 GRILYVNPAAEELLGYSPEELLGKSLLDLLHPEDRERLLELlrRLLEGGRESYELELRLKDGDGRWVWVEASAVPLRdGG 236

                        250       260
                 ....*....|....*....|..
gi 506428315 519 VITASVHIMRDISDRKRAEAEL 540
Cdd:COG2202  237 EVIGVLGIVRDITERKRAEEAL 258
COG4191 COG4191
Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal ...
 526-817 6.49e-38

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


Pssm-ID: 443345 [Multi-domain]  Cd Length: 361  Bit Score: 145.33  E-value: 6.49e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 526 IMRDISDRKRAEAELAKTHAKLIETARQIGMAEVATGVLHNVGNVLNSVNISTEVMQRKVKDSRindlmevmnlvkehed 605
Cdd:COG4191  112 LERDITELERAEEELRELQEQLVQSEKLAALGELAAGIAHEINNPLAAILGNAELLRRRLEDEP---------------- 175

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 606 slphflfhdsqgreilpflhdlslhLAEEQNALLNEINELSGytsHISEIVKTQQEWS-KVPGLVEPLSLKDVVEEVLTI 684
Cdd:COG4191  176 -------------------------DPEELREALERILEGAE---RAAEIVRSLRAFSrRDEEEREPVDLNELIDEALEL 227

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 685 NAAGLKRNTIQVVRDYQP-VPDVAADRRKLTQILMNLVSNAGHALNSTaeEERILTVSLFSDsPGFTSVRVTDNGEGIAK 763
Cdd:COG4191  228 LRPRLKARGIEVELDLPPdLPPVLGDPGQLEQVLLNLLINAIDAMEEG--EGGRITISTRRE-GDYVVISVRDNGPGIPP 304

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 506428315 764 ENMSRLFRYGFTTKK--KGHGFGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:COG4191  305 EVLERIFEPFFTTKPvgKGTGLGLSISYGIVEKHGGRIEVESE-PGGGTTFTITLP 359
PRK11360 PRK11360
two-component system sensor histidine kinase AtoS;
433-822 1.37e-30

two-component system sensor histidine kinase AtoS;


Pssm-ID: 236901 [Multi-domain]  Cd Length: 607  Bit Score: 128.16  E-value: 1.37e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 433 DLIAIIDSGHKIVRVNKAMAAAFGTTPDKMVGASCTQVVhctSGPPDFCPHVL-SLTDGKYH-DAEVYDDNL--GAHLHV 508
Cdd:PRK11360 273 DGVIAIDRQGKITTMNPAAEVITGLQRHELVGKPYSELF---PPNTPFASPLLdTLEHGTEHvDLEISFPGRdrTIELSV 349

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 509 STSPIRDAEGVITASVHIMRDISDRKRAEAELAKTHaklietaRQIGMAEVATGVLHNVGNVLNSVNISTEVMQRKVKDs 588
Cdd:PRK11360 350 STSLLHNTHGEMIGALVIFSDLTERKRLQRRVARQE-------RLAALGELVAGVAHEIRNPLTAIRGYVQIWRQQTSD- 421

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 589 rindlmevmnlvKEHEDSLphflfhdsqgreilpflhdlslhlaeeqNALLNEINELSGYTSHISEIVK-TQQEWSKVpg 667
Cdd:PRK11360 422 ------------PPSQEYL----------------------------SVVLREVDRLNKVIDQLLEFSRpRESQWQPV-- 459

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 668 lveplSLKDVVEEVLTINAAGLKRNTIQVVRDYQP-VPDVAADRRKLTQILMNLVSNAGHALNSTAEeeriLTVSLFSDS 746
Cdd:PRK11360 460 -----SLNALVEEVLQLFQTAGVQARVDFETELDNeLPPIWADPELLKQVLLNILINAVQAISARGK----IRIRTWQYS 530

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 747 PGFTSVRVTDNGEGIAKENMSRLFRYGFTTKKKGHGFGLhscALaAQEM----GGSLFAESEgPGQGASFTMRIPSNDGG 822
Cdd:PRK11360 531 DGQVAVSIEDNGCGIDPELLKKIFDPFFTTKAKGTGLGL---AL-SQRIinahGGDIEVESE-PGVGTTFTLYLPINPQG 605
BaeS COG0642
Signal transduction histidine kinase [Signal transduction mechanisms];
623-817 2.18e-28

Signal transduction histidine kinase [Signal transduction mechanisms];


Pssm-ID: 440407 [Multi-domain]  Cd Length: 328  Bit Score: 116.93  E-value: 2.18e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 623 FLHDLSLHLAEEQ----NALLNEINELSGYTSHISEIVKTQQEwsKVPGLVEPLSLKDVVEEVLTINAAGLKRNTIQVVR 698
Cdd:COG0642  131 YLELLLEELDEEQreylETILRSADRLLRLINDLLDLSRLEAG--KLELEPEPVDLAELLEEVVELFRPLAEEKGIELEL 208

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 699 DYQP-VPDVAADRRKLTQILMNLVSNAghaLNSTAEEERIlTVSLfSDSPGFTSVRVTDNGEGIAKENMSRLFRYGFTTK 777
Cdd:COG0642  209 DLPDdLPTVRGDPDRLRQVLLNLLSNA---IKYTPEGGTV-TVSV-RREGDRVRISVEDTGPGIPPEDLERIFEPFFRTD 283

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....
gi 506428315 778 K----KGHGFGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:COG0642  284 PsrrgGGTGLGLAIVKRIVELHGGTIEVESE-PGKGTTFTVTLP 326
KdpD COG2205
K+-sensing histidine kinase KdpD [Signal transduction mechanisms];
539-817 1.06e-24

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


Pssm-ID: 441807 [Multi-domain]  Cd Length: 239  Bit Score: 103.45  E-value: 1.06e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 539 ELAKTHAKLIETARQigMAEVATGVLHNVGNVLNSVNISTEVMQRKVKDSrindlmevmnlvkehedslphflfhDSQGR 618
Cdd:COG2205    1 ELEEALEELEELERL--KSEFLANVSHELRTPLTSILGAAELLLDEEDLS-------------------------PEERR 53

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 619 EILPFLHDLSLHLaeeqNALLNEINELSGYTSHISEIVKtqqewskvpglvEPLSLKDVVEEVLTINAAGLKRNTIQVVR 698
Cdd:COG2205   54 ELLEIIRESAERL----LRLIEDLLDLSRLESGKLSLEL------------EPVDLAELLEEAVEELRPLAEEKGIRLEL 117

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 699 DYQP-VPDVAADRRKLTQILMNLVSNAghaLNSTAEEERIlTVSLFSDsPGFTSVRVTDNGEGIAKENMSRLF----RYG 773
Cdd:COG2205  118 DLPPeLPLVYADPELLEQVLANLLDNA---IKYSPPGGTI-TISARRE-GDGVRISVSDNGPGIPEEELERIFerfyRGD 192

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....
gi 506428315 774 FTTKKKGHGFGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:COG2205  193 NSRGEGGTGLGLAIVKRIVEAHGGTIWVESE-PGGGTTFTVTLP 235
CitA COG3290
Sensor histidine kinase DipB regulating citrate/malate metabolism [Signal transduction ...
 399-817 7.66e-24

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


Pssm-ID: 442519 [Multi-domain]  Cd Length: 389  Bit Score: 104.55  E-value: 7.66e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 399 FVVGIARDISERKRTEENIIRAKKEWERTFDAVPDLIAIIDSGHKIVRVNKAMAAAFGTTPdkmVGASCTQVVHctsgpp 478
Cdd:COG3290   61 LLLLLLLLAALLLKLLEEIARLVEEREAVLESIREGVIAVDRDGRITLINDAARRLLGLDA---IGRPIDEVLA------ 131

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 479 dfcphvlSLTDGKYHDAEVYDDnlGAHLHVSTSPIRDaEGVITASVHIMRDISDRKRAEAELAKTHaKLIETARqigmae 558
Cdd:COG3290  132 -------EVLETGERDEEILLN--GRVLVVNRVPIRD-DGRVVGAVATFRDRTELERLEEELEGVK-ELAEALR------ 194

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 559 vatgvlhnvgnvlnsvnistevMQRkvkdsrindlmevmnlvkehedslphflfHDsqgreilpFLHDLS--LHLAEeqn 636
Cdd:COG3290  195 ----------------------AQR-----------------------------HD--------FRNHLHtiSGLLQ--- 212

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 637 alLNEINELSGYtshISEIVKTQQEWSKVpglvEPLSLKD-VVEEVLTINAAGLKRNTIQV-VRDYQPVPDVAADRRKLT 714
Cdd:COG3290  213 --LGEYDEALEY---IDEISEELQELIDS----LLSRIGNpVLAALLLGKAARARERGIDLtIDIDSDLPDLPLSDTDLV 283

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 715 QILMNLVSNAGHALNSTAEEERILTVSLfSDSPGFTSVRVTDNGEGIAKENMSRLFRYGFTTKKK-GHGFGLHSCALAAQ 793
Cdd:COG3290  284 TILGNLLDNAIEAVEKLPEEERRVELSI-RDDGDELVIEVEDSGPGIPEELLEKIFERGFSTKLGeGRGLGLALVKQIVE 362

                        410       420
                 ....*....|....*....|....
gi 506428315 794 EMGGSLFAESEgPGQGASFTMRIP 817
Cdd:COG3290  363 KYGGTIEVESE-EGEGTVFTVRLP 385
PAS COG2202
PAS domain [Signal transduction mechanisms];
277-417 5.08e-22

PAS domain [Signal transduction mechanisms];


Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 96.25  E-value: 5.08e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 277 DINELESAQEALRKSENLLQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFRKNHPQYLRS 356
Cdd:COG2202  121 DITERKRAEEALRESEERLRLLVENAPDGIFVLDLDGRILYVNPAAEELLGYSPEELLGKSLLDLLHPEDRERLLELLRR 200

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 506428315 357 YFSTGKPDAAmgkiLELPAMRGDGAVFPMEISLSSGE-ADSKSFVVGIARDISERKRTEENI 417
Cdd:COG2202  201 LLEGGRESYE----LELRLKDGDGRWVWVEASAVPLRdGGEVIGVLGIVRDITERKRAEEAL 258
HATPase_c smart00387
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
 708-817 6.34e-22

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


Pssm-ID: 214643 [Multi-domain]  Cd Length: 111  Bit Score: 91.56  E-value: 6.34e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315   708 ADRRKLTQILMNLVSNAghaLNSTAEEERIlTVSLfSDSPGFTSVRVTDNGEGIAKENMSRLFRYGFTTKK-----KGHG 782
Cdd:smart00387   1 GDPDRLRQVLSNLLDNA---IKYTPEGGRI-TVTL-ERDGDHVEITVEDNGPGIPPEDLEKIFEPFFRTDKrsrkiGGTG 75

                           90       100       110
                   ....*....|....*....|....*....|....*
gi 506428315   783 FGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:smart00387  76 LGLSIVKKLVELHGGEISVESE-PGGGTTFTITLP 109
sensory_box TIGR00229
PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain ...
 291-417 6.50e-22

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: 91.97  E-value: 6.50e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315  291 SENLLQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFRKNHPQYLRSYFSTGKPDAAMGKI 370
Cdd:TIGR00229   1 SEERYRAIFESSPDAIIVIDLEGNILYVNPAFEEIFGYSAEELIGRNVLELIPEEDREEVRERIERRLEGEPEPVSEERR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 506428315  371 LElpamRGDGAVFPMEISLSSGEADS-KSFVVGIARDISERKRTEENI 417
Cdd:TIGR00229  81 VR----RKDGSEIWVEVSVSPIRTNGgELGVVGIVRDITERKEAEEAL 124
WalK COG5002
Sensor histidine kinase WalK [Signal transduction mechanisms];
670-817 1.86e-20

Sensor histidine kinase WalK [Signal transduction mechanisms];


Pssm-ID: 444026 [Multi-domain]  Cd Length: 390  Bit Score: 94.62  E-value: 1.86e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 670 EPLSLKDVVEEVLTINAAGLKRNTIQVVRDYQP-VPDVAADRRKLTQILMNLVSNaghALNSTAEEERIlTVSLFSDSPG 748
Cdd:COG5002  238 EPVDLAELLEEVVEELRPLAEEKGIELELDLPEdPLLVLGDPDRLEQVLTNLLDN---AIKYTPEGGTI-TVSLREEDDQ 313

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 506428315 749 FTsVRVTDNGEGIAKENMSRLF-RY-----GFTTKKKGHGFGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:COG5002  314 VR-ISVRDTGIGIPEEDLPRIFeRFyrvdkSRSRETGGTGLGLAIVKHIVEAHGGRIWVESE-PGKGTTFTITLP 386
PRK11359 PRK11359
cyclic-di-GMP phosphodiesterase; Provisional
 305-661 1.70e-19

cyclic-di-GMP phosphodiesterase; Provisional


Pssm-ID: 183097 [Multi-domain]  Cd Length: 799  Bit Score: 93.68  E-value: 1.70e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 305 AIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFRKNHPQYLRSYFSTGKPDAAmGKILELPAMRGDGAVFP 384
Cdd:PRK11359  24 GAVLINENDEVLFFNPAAEKLWGYKREEVIGNNIDMLIPRDLRPAHPEYIRHNREGGKARVE-GMSRELQLEKKDGSKIW 102

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 385 MEISLSSGEADSKSFVVGIARDIS-ERKRTEEN--IIRAKKEWERTfdavpdlIAIIDSGHKIVRVNKAMAAAFGTTPDK 461
Cdd:PRK11359 103 TRFALSKVSAEGKVYYLALVRDASvEMAQKEQTrqLIIAVDHLDRP-------VIVLDPERRIVQCNRAFTEMFGYCISE 175

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 462 MVGASCTQVVHCTSGPPDFCPHVLSLTDGKYHDAE----VYDDNLGAHLHVSTSPIRDAEGVITASVHIMRDISDRKRAE 537
Cdd:PRK11359 176 ASGMQPDTLLNIPEFPADNRIRLQQLLWKTARDQDefllLTRTGEKIWIKASISPVYDVLAHLQNLVMTFSDITEERQIR 255

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 538 AELAKTHAKLIETarqIGMAEVATGVLHNVGNVLNSVNISTEVMQRKV--------KDSRINDlMEVMNLVKEHEDSLPH 609
Cdd:PRK11359 256 QLEGNILAAMCSS---PPFHEMGEIICRNIESVLNESHVSLFALRNGMpihwasssHGAEYQN-AQSWSATIRQRDGAPA 331

                        330       340       350       360       370       380       390
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 506428315 610 --FLFHDSQGREILPFLH---DLSLHLAE---EQNALLNEINELSGYT------------SHISEIVKTQQE 661
Cdd:PRK11359 332 gtLQIKTSSGAETSAFIErvaDISQHLAAlalEQEKSRQHIEQLIQFDpltglpnrnnlhNYLDDLVDKAVS 403
HATPase_c pfam02518
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the ...
 708-817 1.69e-18

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: 81.65  E-value: 1.69e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315  708 ADRRKLTQILMNLVSNAghaLNSTAEEERIlTVSLfsDSPGFTSVRVTDNGEGIAKENMSRLFRyGFTTKKK----GHGF 783
Cdd:pfam02518   1 GDELRLRQVLSNLLDNA---LKHAAKAGEI-TVTL--SEGGELTLTVEDNGIGIPPEDLPRIFE-PFSTADKrgggGTGL 73

                          90       100       110
                  ....*....|....*....|....*....|....
gi 506428315  784 GLHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:pfam02518  74 GLSIVRKLVELLGGTITVESE-PGGGTTVTLTLP 106
COG4251 COG4251
Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal ...
 599-817 2.73e-17

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


Pssm-ID: 443393 [Multi-domain]  Cd Length: 503  Bit Score: 85.99  E-value: 2.73e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 599 LVKEHEDSLphflfhDSQGREILPFLHDLSLHLaeeqNALLNEINELSGytshiseIVKTQQEWskvpglvEPLSLKDVV 678
Cdd:COG4251  307 LEEDYGDKL------DEEGREYLERIRDAAERM----QALIDDLLAYSR-------VGRQELEF-------EPVDLNELL 362

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 679 EEVLTINAAGLKRNTIQVVrdYQPVPDVAADRRKLTQILMNLVSNaghALNSTAEEER-ILTVSlFSDSPGFTSVRVTDN 757
Cdd:COG4251  363 EEVLEDLEPRIEERGAEIE--VGPLPTVRGDPTLLRQVFQNLISN---AIKYSRPGEPpRIEIG-AEREGGEWVFSVRDN 436

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 506428315 758 GEGIAKENMSRLF----RYGFTTKKKGHGFGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:COG4251  437 GIGIDPEYAEKIFeifqRLHSRDEYEGTGIGLAIVKKIVERHGGRIWVESE-PGEGATFYFTLP 499
HATPase_TmoS-FixL-DctS-like cd16920
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...
 713-817 2.92e-17

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: 77.82  E-value: 2.92e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 713 LTQILMNLVSNAGHALNSTAEEERILTVSLFSDSPGFTSVRVTDNGEGIAKENMSRLFRYGFTTKKKGHGFGLHSCALAA 792
Cdd:cd16920    1 IQQVLINLVRNGIEAMSEGGCERRELTIRTSPADDRAVTISVKDTGPGIAEEVAGQLFDPFYTTKSEGLGMGLSICRSII 80

                         90       100
                 ....*....|....*....|....*
gi 506428315 793 QEMGGSLFAESEGPGqGASFTMRIP 817
Cdd:cd16920   81 EAHGGRLSVESPAGG-GATFQFTLP 104
HATPase_DpiB-CitA-like cd16915
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...
 713-817 7.72e-17

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: 76.56  E-value: 7.72e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 713 LTQILMNLVSNAGHALNSTAEEERILTVSLFSDSpGFTSVRVTDNGEGIAKENMSRLFRYGFTTK-KKGHGFGLHSCALA 791
Cdd:cd16915    1 LITIVGNLIDNALDALAATGAPNKQVEVFLRDEG-DDLVIEVRDTGPGIAPELRDKVFERGVSTKgQGERGIGLALVRQS 79

                         90       100
                 ....*....|....*....|....*.
gi 506428315 792 AQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:cd16915   80 VERLGGSITVESE-PGGGTTFSIRIP 104
PAS COG2202
PAS domain [Signal transduction mechanisms];
412-557 1.60e-14

PAS domain [Signal transduction mechanisms];


Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 74.29  E-value: 1.60e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 412 RTEENIIRAKKEWERTFDAVPDLIAIIDSGHKIVRVNKAMAAAFGTTPDKMVGASCTQVVHCTSGPPDFCPHVLSLTDGK 491
Cdd:COG2202    1 TAEEALEESERRLRALVESSPDAIIITDLDGRILYVNPAFERLTGYSAEELLGKTLRDLLPPEDDDEFLELLRAALAGGG 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 506428315 492 YHDAEVY---DDNLGAHLHVSTSPIRDAEGVITASVHIMRDISDRKRAEAELAKTHAKLIETARQIGMA 557
Cdd:COG2202   81 VWRGELRnrrKDGSLFWVELSISPVRDEDGEITGFVGIARDITERKRAEEALRESEERLRLLVENAPDG 149
PRK10364 PRK10364
two-component system sensor histidine kinase ZraS;
670-825 2.75e-14

two-component system sensor histidine kinase ZraS;


Pssm-ID: 236674 [Multi-domain]  Cd Length: 457  Bit Score: 75.98  E-value: 2.75e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 670 EPLSLKDVVEEVLTINAAGLKRNTIQV-VRDYQPVPDVAADRRKLTQILMNLVSNAGHALNstaeEERILTVSLfSDSPG 748
Cdd:PRK10364 305 QAVDLNDLINHSLQLVSQDANSREIQLrFTANDTLPEIQADPDRLTQVLLNLYLNAIQAIG----QHGVISVTA-SESGA 379

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 506428315 749 FTSVRVTDNGEGIAKENMSRLFRYGFTTKKKGHGFGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIPSNdGGRKD 825
Cdd:PRK10364 380 GVKISVTDSGKGIAADQLEAIFTPYFTTKAEGTGLGLAVVHNIVEQHGGTIQVASQ-EGKGATFTLWLPVN-ITRRD 454
HATPase_EvgS-ArcB-TorS-like cd16922
Histidine kinase-like ATPase domain of two-component sensor histidine kinases, many are hybrid ...
 713-817 2.76e-14

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: 69.44  E-value: 2.76e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 713 LTQILMNLVSNaghALNSTAEEERILTVSLFSDSPGFTSVR--VTDNGEGIAKENMSRLFRY-----GFTTKK-KGHGFG 784
Cdd:cd16922    1 LRQILLNLLGN---AIKFTEEGEVTLRVSLEEEEEDGVQLRfsVEDTGIGIPEEQQARLFEPfsqadSSTTRKyGGTGLG 77

                         90       100       110
                 ....*....|....*....|....*....|...
gi 506428315 785 LHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:cd16922   78 LAISKKLVELMGGDISVESE-PGQGSTFTFTLP 109
PRK11086 PRK11086
sensory histidine kinase DcuS; Provisional
 713-826 9.76e-14

sensory histidine kinase DcuS; Provisional


Pssm-ID: 236839 [Multi-domain]  Cd Length: 542  Bit Score: 74.56  E-value: 9.76e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 713 LTQILMNLVSNAGHALnsTAEEERILTVSL-FSDspGFTSVRVTDNGEGIAKENMSRLFRYGFTTKKKGHGFGLHSCALA 791
Cdd:PRK11086 434 LITILGNLIENALEAV--GGEEGGEISVSLhYRN--GWLHCEVSDDGPGIAPDEIDAIFDKGYSTKGSNRGVGLYLVKQS 509

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 506428315 792 AQEMGGSLFAESEgPGQGASFTMRIPSnDGGRKDA 826
Cdd:PRK11086 510 VENLGGSIAVESE-PGVGTQFFVQIPW-DGERSNR 542
HATPase_HupT_MifS-like cd16976
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...
 713-814 1.75e-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: 67.10  E-value: 1.75e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 713 LTQILMNLVSNAGHALNSTaEEERILTVSLFSDSPGFtsVRVTDNGEGIAKENMSRLFRYGFTTKK--KGHGFGLHSCAL 790
Cdd:cd16976    1 IQQVLMNLLQNALDAMGKV-ENPRIRIAARRLGGRLV--LVVRDNGPGIAEEHLSRVFDPFFTTKPvgKGTGLGLSISYG 77

                         90       100
                 ....*....|....*....|....
gi 506428315 791 AAQEMGGSLFAESEGPGqGASFTM 814
Cdd:cd16976   78 IVEEHGGRLSVANEEGA-GARFTF 100
PRK13560 PRK13560
hypothetical protein; Provisional
 277-540 1.96e-13

hypothetical protein; Provisional


Pssm-ID: 106506 [Multi-domain]  Cd Length: 807  Bit Score: 74.32  E-value: 1.96e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 277 DINELESAQEALRKSENLLQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFRKNHPQylrs 356
Cdd:PRK13560 188 DITERKRAEERIDEALHFLQQLLDNIADPAFWKDEDAKVFGCNDAACLACGFRREEIIGMSIHDFAPAQPADDYQE---- 263

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 357 yFSTGKPDAAMGKILELPAMRGDGAVFPMEISLSSGEADSKSF----VVGIARDISERKRTEENIIRAKKEWERTFDAVP 432
Cdd:PRK13560 264 -ADAAKFDADGSQIIEAEFQNKDGRTRPVDVIFNHAEFDDKENhcagLVGAITDISGRRAAERELLEKEDMLRAIIEAAP 342

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 433 DLIAIIDSGHKIVRVNKAMAaafgttpDKMVGASCTQVVH---------------CTS-------GPP---DFCPHVLSL 487
Cdd:PRK13560 343 IAAIGLDADGNICFVNNNAA-------ERMLGWSAAEVMGkplpgmdpelneefwCGDfqewypdGRPmafDACPMAKTI 415

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 506428315 488 TDGKYHDA-EVY---DDNLGAHLHVSTSPIRDAEGVITASVHIMRDISDRKRAEAEL 540
Cdd:PRK13560 416 KGGKIFDGqEVLierEDDGPADCSAYAEPLHDADGNIIGAIALLVDITERKQVEEQL 472
HATPase_AtoS-like cd16943
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...
 710-817 5.14e-13

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: 65.91  E-value: 5.14e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 710 RRKLTQILMNLVSNAGHALNstaEEERILTVSLFSDSPGFTSVRvtDNGEGIAKENMSRLFRYGFTTKKKGHGFGLhSCA 789
Cdd:cd16943    1 PSQLNQVLLNLLVNAAQAME---GRGRITIRTWAHVDQVLIEVE--DTGSGIDPEILGRIFDPFFTTKPVGEGTGL-GLS 74

                         90       100       110
                 ....*....|....*....|....*....|.
gi 506428315 790 LA---AQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:cd16943   75 LSyriIQKHGGTIRVASV-PGGGTRFTIILP 104
RocR COG3829
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ...
 414-552 1.48e-12

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: 70.57  E-value: 1.48e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 414 EENIIRAKKEWERTFDAVPDLIAIIDSGHKIVRVNKAMAAAFGTTPDKMVGASCTQVVHCTsgppdfcPHVLSLTDGKYH 493
Cdd:COG3829    3 ELELKELEEELEAILDSLDDGIIVVDADGRITYVNRAAERILGLPREEVIGKNVTELIPNS-------PLLEVLKTGKPV 75

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 494 DAEVYD-DNLGAHLHVSTSPIRDaEGVITASVHIMRDISDRKRAEAELAKTHAKLIETAR 552
Cdd:COG3829   76 TGVIQKtGGKGKTVIVTAIPIFE-DGEVIGAVETFRDITELKRLERKLREEELERGLSAK 134
PRK13837 PRK13837
two-component system VirA-like sensor kinase;
516-818 2.11e-12

two-component system VirA-like sensor kinase;


Pssm-ID: 237526 [Multi-domain]  Cd Length: 828  Bit Score: 70.86  E-value: 2.11e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 516 AEGVITASVHIMRDISDRKRAEAELAktHAKLIETarqIGMaeVATGVLHNVGNVLNSVNISTEVMQRKVKDSRindlme 595
Cdd:PRK13837 417 ALDCLAHAIERRRLETERDALERRLE--HARRLEA---VGT--LASGIAHNFNNILGAILGYAEMALNKLARHS------ 483

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 596 vmnlvkehedslphflfhdsqgreilpflhdlslHLAEEqnallneINELSGYTSHISEIVKTQQEWSKV-PGLVEPLSL 674
Cdd:PRK13837 484 ----------------------------------RAARY-------IDEIISAGARARLIIDQILAFGRKgERNTKPFDL 522

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 675 KDVVEEVLTINAAGLKRnTIQVVRDYQPVPDVA-ADRRKLTQILMNLVSNAGHALN---------STAEEERILTVSLFS 744
Cdd:PRK13837 523 SELVTEIAPLLRVSLPP-GVELDFDQDQEPAVVeGNPAELQQVLMNLCSNAAQAMDgagrvdislSRAKLRAPKVLSHGV 601

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 506428315 745 DSPG-FTSVRVTDNGEGIAKENMSRLFRYGFTTKKKGHGFGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIPS 818
Cdd:PRK13837 602 LPPGrYVLLRVSDTGAGIDEAVLPHIFEPFFTTRAGGTGLGLATVHGIVSAHAGYIDVQST-VGRGTRFDVYLPP 675
PAS pfam00989
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
 293-407 2.28e-12

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: 64.36  E-value: 2.28e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315  293 NLLQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFRKNHPQYLRSYFSTGKPDAAMGKILE 372
Cdd:pfam00989   1 EDLRAILESLPDGIFVVDEDGRILYVNAAAEELLGLSREEVIGKSLLDLIPEEDDAEVAELLRQALLQGEESRGFEVSFR 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 506428315  373 LPamrgDGAVFPMEISLSS--GEADSKSFVVGIARDI 407
Cdd:pfam00989  81 VP----DGRPRHVEVRASPvrDAGGEILGFLGVLRDI 113
PAS cd00130
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 302-407 5.33e-12

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. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction.


Pssm-ID: 238075 [Multi-domain]  Cd Length: 103  Bit Score: 63.04  E-value: 5.33e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 302 TRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFRKNHPQYLRSYFSTGKPdaamgKILELPAMRGDGA 381
Cdd:cd00130    1 LPDGVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLSGGEP-----VTLEVRLRRKDGS 75

                         90       100
                 ....*....|....*....|....*...
gi 506428315 382 VFPMEISLSS--GEADSKSFVVGIARDI 407
Cdd:cd00130   76 VIWVLVSLTPirDEGGEVIGLLGVVRDI 103
COG4192 COG4192
Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal ...
 530-803 2.52e-11

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


Pssm-ID: 443346 [Multi-domain]  Cd Length: 640  Bit Score: 67.40  E-value: 2.52e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 530 ISDRKRAEAELAKTHAKLIETARQIGMAEVATGVLHNVGNVLNSVNIstevmqrkvkdsrindlmevmnlvkehedslph 609
Cdd:COG4192  407 IEERKRIEKNLRQTQDELIQAAKMAVVGQTMTSLAHELNQPLNAMSM--------------------------------- 453

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 610 FLFhdsqgreilpflhdlSLHLAEEQ---NALLNEINELSGYTSHISEIVKTQQEWS-KVPGLVEPLSLKDVVEEVLTIN 685
Cdd:COG4192  454 YLF---------------SAKKALEQenyAQLPTSLDKIEGLIERMDKIIKSLRQFSrKSDTPLQPVDLRQVIEQAWELV 518

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 686 AAGLKRNtiQVVRDYQPVPDVAADRRKLTQILMNLVSNAGHAlnstAEEERILTVSLFSDSPGFTsVRVTDNGEGIAkeN 765
Cdd:COG4192  519 ESRAKPQ--QITLHIPDDLMVQGDQVLLEQVLVNLLVNALDA----VATQPQISVDLLSNAENLR-VAISDNGNGWP--L 589

                        250       260       270
                 ....*....|....*....|....*....|....*...
gi 506428315 766 MSRLFRYGFTTKKKGHGFGLHSCALAAQEMGGSLFAES 803
Cdd:COG4192  590 VDKLFTPFTTTKEVGLGLGLSICRSIMQQFGGDLYLAS 627
PRK13560 PRK13560
hypothetical protein; Provisional
 277-822 3.77e-11

hypothetical protein; Provisional


Pssm-ID: 106506 [Multi-domain]  Cd Length: 807  Bit Score: 67.00  E-value: 3.77e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 277 DINELESAQEALRKSENLLQTLINTTRDAIIAIDQTGRITLFNH-AGEKMFQRTRDEMLGQPLePLMPPEFRKN-HPQYL 354
Cdd:PRK13560 316 DISGRRAAERELLEKEDMLRAIIEAAPIAAIGLDADGNICFVNNnAAERMLGWSAAEVMGKPL-PGMDPELNEEfWCGDF 394

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 355 RSYFSTGKPDAAM----------GKIL---ELPAMRGDGAvfPMEISL-SSGEADSKSFVVG---IARDISERKRTEENI 417
Cdd:PRK13560 395 QEWYPDGRPMAFDacpmaktikgGKIFdgqEVLIEREDDG--PADCSAyAEPLHDADGNIIGaiaLLVDITERKQVEEQL 472

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 418 IRAKKEWERT------FDAVPdliaiidsGHKIVRVNKAMaAAFGTTPDKMVGASC--TQVVHctsgPPDFCPHVLSLTD 489
Cdd:PRK13560 473 LLANLIVENSplvlfrWKAEE--------GWPVELVSKNI-TQFGYEPDEFISGKRmfAAIIH----PADLEQVAAEVAE 539

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 490 GKYHDAEVYDDNL------GAHLHVS--TSPIRDAEGVITASVHIMRDISDRKRAEaelAKTHAKLIEtaRQIGMAEVAt 561
Cdd:PRK13560 540 FAAQGVDRFEQEYrilgkgGAVCWIDdqSAAERDEEGQISHFEGIVIDISERKHAE---EKIKAALTE--KEVLLKEIH- 613

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 562 gvlHNVGNVLNSVNISTEVMQRKVKDsrindlmevmnlvkehEDSLPhfLFHDSQGReilpflhDLSLHLAEEQ---NAL 638
Cdd:PRK13560 614 ---HRVKNNLQIISSLLDLQAEKLHD----------------EEAKC--AFAESQDR-------ICAMALAHEKlyqSED 665

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 639 LNEINeLSGY----TSHISEIVKTQQewSKVPGLVeplslkDVVEEVLTINaaglkrntiqvvrdyQPVPdvaadrrkLT 714
Cdd:PRK13560 666 LADID-FLDYieslTAHLKNSFAIDF--GRIDCKI------DADDGCLDID---------------KAIP--------CG 713

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 715 QILMNLVSNA-GHALNSTAEEEriLTVSLFSDSPGFTSVRVTDNGEGIAKEnmsrlFRYgfttkKKGHGFGLHSCALAAQ 793
Cdd:PRK13560 714 LIISELLSNAlKHAFPDGAAGN--IKVEIREQGDGMVNLCVADDGIGLPAG-----FDF-----RAAETLGLQLVCALVK 781

                        570       580
                 ....*....|....*....|....*....
gi 506428315 794 EMGGSLFAESEGpgqGASFTMRIPSNDGG 822
Cdd:PRK13560 782 QLDGEIALDSRG---GARFNIRFPMSPAG 807
RocR COG3829
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ...
 283-454 6.96e-11

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: 65.18  E-value: 6.96e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 283 SAQEALRKSENLLQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEplmppEFRKNHPqyLRSYFSTGK 362
Cdd:COG3829    1 AEELELKELEEELEAILDSLDDGIIVVDADGRITYVNRAAERILGLPREEVIGKNVT-----ELIPNSP--LLEVLKTGK 73

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 363 PdaAMGKILELPAMRGDGAV--FPMeisLSSGEADsksFVVGIARDISERKRTEENIIRAKKewERTFDAVPDLIAIIDS 440
Cdd:COG3829   74 P--VTGVIQKTGGKGKTVIVtaIPI---FEDGEVI---GAVETFRDITELKRLERKLREEEL--ERGLSAKYTFDDIIGK 143

                        170
                 ....*....|....*
gi 506428315 441 GHKIVRV-NKAMAAA 454
Cdd:COG3829  144 SPAMKELlELAKRVA 158
PAS smart00091
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 294-356 7.38e-11

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: 58.56  E-value: 7.38e-11
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 506428315   294 LLQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFRKNHPQYLRS 356
Cdd:smart00091   2 RLRAILESLPDGIFVLDLDGRILYANPAAEELLGYSPEELIGKSLLELIHPEDRERVQEALQR 64
PAS_4 pfam08448
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
 428-535 7.55e-11

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: 59.74  E-value: 7.55e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315  428 FDAVPDLIAIIDSGHKIVRVNKAMAAAFGTTPDKMVGASCTQvVHCTSGPPDFCPHVLSLTDGK--YHDAEVYDDNlGAH 505
Cdd:pfam08448   1 LDSLPDALAVLDPDGRVRYANAAAAELFGLPPEELLGKTLAE-LLPPEDAARLERALRRALEGEepIDFLEELLLN-GEE 78

                          90       100       110
                  ....*....|....*....|....*....|..
gi 506428315  506 LHVSTS--PIRDAEGVITASVHIMRDISDRKR 535
Cdd:pfam08448  79 RHYELRltPLRDPDGEVIGVLVISRDITERRR 110
COG4192 COG4192
Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal ...
 157-297 2.49e-10

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


Pssm-ID: 443346 [Multi-domain]  Cd Length: 640  Bit Score: 63.94  E-value: 2.49e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 157 QENSLRIAKQEliTSLDSLARIEQRNLRDFSQSAAEIASKTKLLILAIAIGALIFAVFqgIA---VSGSISKPLDNLVKA 233
Cdd:COG4192  286 EENNSILEQLR--TQISGLVGNSREQLVALNQETAQLVQQSGILLLAIALLSLLLAVL--INyfyVRRRLVKRLNALSDA 361

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 506428315 234 AMEIGKGNLNVSIEEKGDVEIVRMGEALNRMIQNMEESKKRLID-INELESAQEALRKSEN-LLQT 297
Cdd:COG4192  362 MAAIAAGDLDVPIPVDGNDEIGRIARLLRVFRDQAIEKTQELETeIEERKRIEKNLRQTQDeLIQA 427
PRK11466 PRK11466
hybrid sensory histidine kinase TorS; Provisional
 670-817 1.35e-09

hybrid sensory histidine kinase TorS; Provisional


Pssm-ID: 236914 [Multi-domain]  Cd Length: 914  Bit Score: 61.84  E-value: 1.35e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 670 EPLSLKDVVEEVLTINAAGLKRNTIQVVRDY-QPVPD-VAADRRKLTQILMNLVSNAghaLNSTaeEERILTVSLFSDSP 747
Cdd:PRK11466 517 EPFEPRPLLESTLQLMSGRVKGRPIRLATDIaDDLPTaLMGDPRRIRQVITNLLSNA---LRFT--DEGSIVLRSRTDGE 591

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 506428315 748 GFTsVRVTDNGEGIAKENMSRLFR--YGFTTKKKGHGFGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:PRK11466 592 QWL-VEVEDSGCGIDPAKLAEIFQpfVQVSGKRGGTGLGLTISSRLAQAMGGELSATST-PEVGSCFCLRLP 661
PRK15347 PRK15347
two component system sensor kinase;
703-820 1.53e-09

two component system sensor kinase;


Pssm-ID: 237951 [Multi-domain]  Cd Length: 921  Bit Score: 61.58  E-value: 1.53e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 703 VPDVAA-DRRKLTQILMNLVSNAghaLNSTAEEERILTVSLFSDSPGFTsvrVTDNGEGIAKENMSRLFR--YGFTTKKK 779
Cdd:PRK15347 503 VPLYLHlDSLRLRQILVNLLGNA---VKFTETGGIRLRVKRHEQQLCFT---VEDTGCGIDIQQQQQIFTpfYQADTHSQ 576

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 506428315 780 GHGFGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIPSND 820
Cdd:PRK15347 577 GTGLGLTIASSLAKMMGGELTLFST-PGVGSCFSLVLPLNE 616
HAMP pfam00672
HAMP domain;
219-270 1.71e-09

HAMP domain;


Pssm-ID: 459898 [Multi-domain]  Cd Length: 53  Bit Score: 54.17  E-value: 1.71e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 506428315  219 VSGSISKPLDNLVKAAMEIGKGNLNVSIEEKGDVEIVRMGEALNRMIQNMEE 270
Cdd:pfam00672   2 LARRILRPLRRLAEAARRIASGDLDVRLPVSGRDEIGELARAFNQMAERLRE 53
PAS_9 pfam13426
PAS domain; This domain is found in many signalling proteins in which it functions as a sensor ...
 442-532 5.94e-09

PAS domain; This domain is found in many signalling proteins in which it functions as a sensor domain. It recognizes FMN, Zn(II), FAD and riboflavin (MAtilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 463873 [Multi-domain]  Cd Length: 93  Bit Score: 54.00  E-value: 5.94e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315  442 HKIVRVNKAMAAAFGTTPDKMVGASCTQVVHCTSGPPDFCPHVLSLTDGKYHDAEVYDDNlGA--HLHVSTSPIRDAEGV 519
Cdd:pfam13426   2 GRIIYVNDAALRLLGYTREELLGKSITDLFAEPEDSERLREALREGKAVREFEVVLYRKD-GEpfPVLVSLAPIRDDGGE 80

                          90
                  ....*....|...
gi 506428315  520 ITASVHIMRDISD 532
Cdd:pfam13426  81 LVGIIAILRDITE 93
HATPase_NtrY-like cd16944
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...
 709-817 7.57e-09

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: 54.08  E-value: 7.57e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 709 DRRKLTQILMNLVSNAGHALNSTAEEERILTVSLFSDSPGFTSVRVTDNGEGIAKENMSRLFRYGFTTKKKGHGFGLHSC 788
Cdd:cd16944    1 DTTQISQVLTNILKNAAEAIEGRPSDVGEVRIRVEADQDGRIVLIVCDNGKGFPREMRHRATEPYVTTRPKGTGLGLAIV 80

                         90       100
                 ....*....|....*....|....*....
gi 506428315 789 ALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:cd16944   81 KKIMEEHGGRISLSNR-EAGGACIRIILP 108
PRK11091 PRK11091
aerobic respiration control sensor protein ArcB; Provisional
 407-817 9.76e-09

aerobic respiration control sensor protein ArcB; Provisional


Pssm-ID: 236842 [Multi-domain]  Cd Length: 779  Bit Score: 59.18  E-value: 9.76e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 407 ISERKRTEENIIRAKKEWE--------------------RTF-DAVPDLIAIIDSGHKIVRVNKAMAAAFGTTPDKMVGA 465
Cdd:PRK11091 119 IAEREKAEEARQEAFEQLKneikereetqieleqqssllRSFlDASPDLVYYRNEDGEFSGCNRAMELLTGKSEKQLIGL 198

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 466 SCTQVVhctsgPPDFCPHVLSlTDGKY--HDAE-------VYDDNLGAHLHVSTSPIRDAEGVITASVHIMRDISDRKRA 536
Cdd:PRK11091 199 TPKDVY-----SPEAAEKVIE-TDEKVfrHNVSltyeqwlDYPDGRKACFELRKVPFYDRVGKRHGLMGFGRDITERKRY 272

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 537 EAELAKTH---AKLIETarqigmaevatgVLHNVGNVLNSVnistevmqrkVKDSRIndLMEVmnlvkehedslphflfh 613
Cdd:PRK11091 273 QDALEKASrdkTTFIST------------ISHELRTPLNGI----------VGLSRI--LLDT----------------- 311

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 614 dsqgreilpflhdlslHLAEEQNALLNEINeLSGYT-----SHISEIVKtqQEWSKVPGLVEPLSLKDVVEEVLTINA-- 686
Cdd:PRK11091 312 ----------------ELTAEQRKYLKTIH-VSAITlgnifNDIIDMDK--MERRKLQLDNQPIDFTDFLADLENLSGlq 372

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 687 ---AGLKRNTIQVvrdyQPVPD-VAADRRKLTQILMNLVSNaghALNSTAEEERILTVSlfSDSPGFTSVRVTDNGEGIA 762
Cdd:PRK11091 373 aeqKGLRFDLEPL----LPLPHkVITDGTRLRQILWNLISN---AVKFTQQGGVTVRVR--YEEGDMLTFEVEDSGIGIP 443

                        410       420       430       440       450       460
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 506428315 763 KENMSRLF-RYGFTTKKKGH------GFGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:PRK11091 444 EDELDKIFaMYYQVKDSHGGkpatgtGIGLAVSKRLAQAMGGDITVTSE-EGKGSCFTLTIH 504
Tar COG0840
Methyl-accepting chemotaxis protein (MCP) [Signal transduction mechanisms];
63-270 1.07e-08

Methyl-accepting chemotaxis protein (MCP) [Signal transduction mechanisms];


Pssm-ID: 440602 [Multi-domain]  Cd Length: 533  Bit Score: 58.49  E-value: 1.07e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315  63 QALRFALRGGEANRIKALEALGEIQSGLQEYSGIVQNDPNRGEAKGRERVVQEKAAAFNQTMRSYLAMNEGYHMERMKES 142
Cdd:COG0840   46 LLLLSLLALLLLLLLLALALLLVLLALLLLLALVVLLALLLALLLLLLALLALALAALALLAALAALLALLELLLAALLA 125

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 143 GSFSPDYIPQVAMDQENSLRIAKQELITSLDSLARIEQRNLRDFSQSAAEIASKTKLLILAIAIGALIFAVFQGIAVSGS 222
Cdd:COG0840  126 ALAIALLALAALLALAALALALLALALLAAAAAAAAALAALLEAAALALAAAALALALLAAALLALVALAIILALLLSRS 205

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 506428315 223 ISKPLDNLVKAAMEIGKGNLNVSIEEKGDVEIVRMGEALNRMIQNMEE 270
Cdd:COG0840  206 ITRPLRELLEVLERIAEGDLTVRIDVDSKDEIGQLADAFNRMIENLRE 253
PRK09303 PRK09303
histidine kinase;
689-817 1.21e-08

histidine kinase;


Pssm-ID: 236462 [Multi-domain]  Cd Length: 380  Bit Score: 58.04  E-value: 1.21e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 689 LKRNTIQVVRDY-QPVPDVAADRRKLTQILMNLVSNaghALNSTAEEERIlTVSLFSDSPGFTSVRVTDNGEGIAKENMS 767
Cdd:PRK09303 248 WLAKSLEIQTDIpSDLPSVYADQERIRQVLLNLLDN---AIKYTPEGGTI-TLSMLHRTTQKVQVSICDTGPGIPEEEQE 323

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 506428315 768 RLF----RYGFTTKKKGHGFGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:PRK09303 324 RIFedrvRLPRDEGTEGYGIGLSVCRRIVRVHYGQIWVDSE-PGQGSCFHFTLP 376
PRK09959 PRK09959
acid-sensing system histidine kinase EvgS;
704-817 2.11e-08

acid-sensing system histidine kinase EvgS;


Pssm-ID: 182169 [Multi-domain]  Cd Length: 1197  Bit Score: 58.21  E-value: 2.11e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315  704 PD---VAADRRKLTQILMNLVSNAghaLNSTAEEERILTVSL--FSDSPGFTSVRVTDNGEGIAKENMSRLF-RYGFTT- 776
Cdd:PRK09959  817 PDhylVKIDPQAFKQVLSNLLSNA---LKFTTEGAVKITTSLghIDDNHAVIKMTIMDSGSGLSQEEQQQLFkRYSQTSa 893

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 506428315  777 --KKKGHGFGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:PRK09959  894 grQQTGSGLGLMICKELIKNMQGDLSLESH-PGIGTTFTITIP 935
YesM COG2972
Sensor histidine kinase YesM [Signal transduction mechanisms];
194-300 4.70e-08

Sensor histidine kinase YesM [Signal transduction mechanisms];


Pssm-ID: 442211 [Multi-domain]  Cd Length: 445  Bit Score: 56.18  E-value: 4.70e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 194 ASKTKLLILAIAIGALIFAVFQGIAVSGSISKPLDNLVKAAMEIGKGNLnVSIEEKGDVEIVRMGEALNRMIQNMEESkk 273
Cdd:COG2972  152 LFSLRRLILLIILLLLLLALLLSYLLSRSITRPIKRLKKAMKKVEKGDL-VRLEVSGNDEIGILARSFNEMVERIKEL-- 228

                         90       100
                 ....*....|....*....|....*...
gi 506428315 274 rlidINELESAQEALRKSE-NLLQTLIN 300
Cdd:COG2972  229 ----IEEVYELELEKKEAElKALQAQIN 252
HAMP smart00304
HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain;
222-271 5.87e-08

HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain;


Pssm-ID: 197640 [Multi-domain]  Cd Length: 53  Bit Score: 49.55  E-value: 5.87e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 506428315   222 SISKPLDNLVKAAMEIGKGNLNVSIEEKGDVEIVRMGEALNRMIQNMEES 271
Cdd:smart00304   2 RLLRPLRRLAEAAQRIADGDLTVRLPVDGRDEIGELARAFNEMADRLEET 51
sensory_box TIGR00229
PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain ...
 424-540 6.86e-08

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: 51.91  E-value: 6.86e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315  424 WERTFDAVPDLIAIIDSGHKIVRVNKAMAAAFGTTPDKMVGASCTQVVHctsgPPDFCPHVL--------------SLTD 489
Cdd:TIGR00229   5 YRAIFESSPDAIIVIDLEGNILYVNPAFEEIFGYSAEELIGRNVLELIP----EEDREEVRErierrlegepepvsEERR 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 506428315  490 GKYHDAEVYddnlgaHLHVSTSPIRDAEGViTASVHIMRDISDRKRAEAEL 540
Cdd:TIGR00229  81 VRRKDGSEI------WVEVSVSPIRTNGGE-LGVVGIVRDITERKEAEEAL 124
HAMP COG2770
HAMP domain [Signal transduction mechanisms];
1-336 7.47e-08

HAMP domain [Signal transduction mechanisms];


Pssm-ID: 442051 [Multi-domain]  Cd Length: 631  Bit Score: 55.89  E-value: 7.47e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315   1 MKLIYRLFIGFFSVVLLTGFVGLIGLDAVDKLGEAVRRIERDNIPHTLLLESITGSSHEACVQALRFALRGGEANRIKAL 80
Cdd:COG2770   14 LLLLLLLLAGALLVLALISLRLLLALLLLLLLLLALLLLLLLLLLLLLAALVLLALLLAAALLLLLLLLSLVALAALLLA 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315  81 EALGEIQSGLQEYSGIVQNDPNRGEAKGRERVVQEKAAAFNQTMRSYLAMNEGYHMERMKESGSFSPDYIPQVAMDQENS 160
Cdd:COG2770   94 LLLLLLLALLLLLAALLLLLLLAALALLLLLLLLLAALLALLLALALLALLLGLAAARLLLAALLALAAALALALGAGEL 173

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 161 LRIAKQELITSLDSLARIEQRNLRDFSQSAAEIASKTKLLILAIAIGALIFAVFQGIAVSGSISKPLDNLVKAAMEIGKG 240
Cdd:COG2770  174 LLLADLAAAIAALLAALLLLLLGGLLLVVLLEAALAALLLLLLLALLALLLALLLALLLARRITRPLRRLAEAARRIAAG 253

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 241 NLNVSIEEKGDVEIVRMGEALNRMIQNMEESKKRLIDINELESAQEALRKSENLLQTLINTTRDAIIAIDQTGRITLFNH 320
Cdd:COG2770  254 DLDVRIPVSRKDEIGELARAFNRMADSLRESIEEAEEEEELAEAELARLLEALLELLLALLLLLLALLLLAAAALLLELL 333

                        330
                 ....*....|....*.
gi 506428315 321 AGEKMFQRTRDEMLGQ 336
Cdd:COG2770  334 LLLLLALLLLLLLAAD 349
HAMP cd06225
Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain; ...
 224-267 1.23e-07

Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain; HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The structure of the Af1503 HAMP dimer from Archaeoglobus fulgidus has been solved using nuclear magnetic resonance, revealing a parallel four-helix bundle; this structure has been confirmed by cross-linking analysis of HAMP domains from the Escherichia coli aerotaxis receptor Aer. It has been suggested that the four-helix arrangement can rotate between the unusually packed conformation observed in the NMR structure and a canonical coiled-coil arrangement. Such rotation may coincide with signal transduction, but a common mechanism by which HAMP domains relay a variety of input signals has yet to be established.


Pssm-ID: 381743 [Multi-domain]  Cd Length: 45  Bit Score: 48.59  E-value: 1.23e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 506428315 224 SKPLDNLVKAAMEIGKGNLNVSIEEKGDVEIVRMGEALNRMIQN 267
Cdd:cd06225    1 TRPLRRLTEAARRIAEGDLDVRVPVRSKDEIGELARAFNQMAER 44
NarQ COG3850
Signal transduction histidine kinase NarQ, nitrate/nitrite-specific [Signal transduction ...
 200-335 1.81e-07

Signal transduction histidine kinase NarQ, nitrate/nitrite-specific [Signal transduction mechanisms];


Pssm-ID: 443059 [Multi-domain]  Cd Length: 448  Bit Score: 54.50  E-value: 1.81e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 200 LILAIAIGALIFAVFQGIAVSGSISKPLDNLVKAAMEIGKGNLNVSIEEKGDVEIVRMGEALNRMIQNMEESKKRLIDIN 279
Cdd:COG3850  119 LALLRLLLALLLALLLAYLLRRRIVRPLRRLTQAAERIARGDFDARVPVSGRDELGTLARAFNRMADELQELYAELEEEE 198

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 506428315 280 ELESAQEALRKSENLLQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLG 335
Cdd:COG3850  199 ELEAELELLALLDELLLLAALLLLLALLLALLLAALLAALLLLLLLQDALAESELL 254
HATPase_BvrS-ChvG-like cd16953
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...
 713-817 3.44e-07

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: 49.49  E-value: 3.44e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 713 LTQILMNLVSNA--------GHALNSTAEEERILTVSlfsdspgftsvrVTDNGEGIAKENMSRLFRYGFTTKKKGHGFG 784
Cdd:cd16953    1 LGQVLRNLIGNAisfsppdtGRITVSAMPTGKMVTIS------------VEDEGPGIPQEKLESIFDRFYTERPANEAFG 68

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 506428315 785 LHS---CALAAQEM---GGSLFAES-EGPGQ--GASFTMRIP 817
Cdd:cd16953   69 QHSglgLSISRQIIeahGGISVAENhNQPGQviGARFTVQLP 110
HATPase_CckA-like cd16919
Histidine kinase-like ATPase domain of two-component sensor hybrid histidine kinases, similar ...
 713-817 5.18e-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: 5.18e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 713 LTQILMNLVSNAGHALN-------STAEEERILTVSLFSDS--PG-FTSVRVTDNGEGIAKENMSRLFRYGFTTKKKGHG 782
Cdd:cd16919    1 LELAILNLAVNARDAMPeggrltiETSNQRVDADYALNYRDliPGnYVCLEVSDTGSGMPAEVLRRAFEPFFTTKEVGKG 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 506428315 783 FGLhscALA-----AQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:cd16919   81 TGL---GLSmvygfVKQSGGHLRIYSE-PGVGTTVRIYLP 116
PAS_9 pfam13426
PAS domain; This domain is found in many signalling proteins in which it functions as a sensor ...
 313-409 8.28e-07

PAS domain; This domain is found in many signalling proteins in which it functions as a sensor domain. It recognizes FMN, Zn(II), FAD and riboflavin (MAtilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 463873 [Multi-domain]  Cd Length: 93  Bit Score: 47.84  E-value: 8.28e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315  313 GRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEfrkNHPQYLRSYFSTGKPDAAmgkiLELPAMRGDGAVFPMEISLSSG 392
Cdd:pfam13426   2 GRIIYVNDAALRLLGYTREELLGKSITDLFAEP---EDSERLREALREGKAVRE----FEVVLYRKDGEPFPVLVSLAPI 74

                          90
                  ....*....|....*....
gi 506428315  393 EADSKS--FVVGIARDISE 409
Cdd:pfam13426  75 RDDGGElvGIIAILRDITE 93
PAS_4 pfam08448
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
 304-412 1.04e-06

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: 48.18  E-value: 1.04e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315  304 DAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFRKNHPQYLRSYFSTGKPdaamgkILELPAMRGDGAVF 383
Cdd:pfam08448   6 DALAVLDPDGRVRYANAAAAELFGLPPEELLGKTLAELLPPEDAARLERALRRALEGEEP------IDFLEELLLNGEER 79

                          90       100       110
                  ....*....|....*....|....*....|....
gi 506428315  384 PMEISLS-----SGEADsksFVVGIARDISERKR 412
Cdd:pfam08448  80 HYELRLTplrdpDGEVI---GVLVISRDITERRR 110
PRK11107 PRK11107
hybrid sensory histidine kinase BarA; Provisional
 671-817 1.48e-06

hybrid sensory histidine kinase BarA; Provisional


Pssm-ID: 236848 [Multi-domain]  Cd Length: 919  Bit Score: 52.16  E-value: 1.48e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 671 PLSLKDVVEEVLTINAAGLKRNTIQVVRDYQP-VPD-VAADRRKLTQILMNLVSNaghALNSTAEEERILTVSLFSDSPG 748
Cdd:PRK11107 365 PFSLRETLDEVVTLLAHSAHEKGLELTLNIDPdVPDnVIGDPLRLQQIITNLVGN---AIKFTESGNIDILVELRALSNT 441

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 749 FTSVR--VTDNGEGIAKENMSRLF------------RYGfttkkkGHGFGLHSCALAAQEMGGSLFAESEgPGQGASFTM 814
Cdd:PRK11107 442 KVQLEvqIRDTGIGISERQQSQLFqafrqadasisrRHG------GTGLGLVITQKLVNEMGGDISFHSQ-PNRGSTFWF 514


                 ...
gi 506428315 815 RIP 817
Cdd:PRK11107 515 HLP 517
HATPase_FilI-like cd16921
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...
 713-817 3.59e-06

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: 46.17  E-value: 3.59e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 713 LTQILMNLVSNAgHALNSTAEEERILTVSlfSDSPGFTSVRVTDNGEGIAKENMSRLF----RYGFTTKKKGHGFGLHSC 788
Cdd:cd16921    1 LGQVLTNLLGNA-IKFRRPRRPPRIEVGA--EDVGEEWTFYVRDNGIGIDPEYAEKVFgifqRLHSREEYEGTGVGLAIV 77

                         90       100
                 ....*....|....*....|....*....
gi 506428315 789 ALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:cd16921   78 RKIIERHGGRIWLESE-PGEGTTFYFTLP 105
HATPase_BceS-YxdK-YvcQ-like cd16948
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...
 709-817 6.59e-06

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: 45.74  E-value: 6.59e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 709 DRRKLTQILMNLVSNAghaLNSTAEEERIlTVSLFSDSPGfTSVRVTDNGEGIAKENMSRLFRYGFTTK-----KKGHGF 783
Cdd:cd16948    2 DAKWLSFIIGQIVSNA---LKYSKQGGKI-EIYSETNEQG-VVLSIKDFGIGIPEEDLPRVFDKGFTGEngrnfQESTGM 76

                         90       100       110
                 ....*....|....*....|....*....|....
gi 506428315 784 GLHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:cd16948   77 GLYLVKKLCDKLGHKIDVESE-VGEGTTFTITFP 109
HATPase_Glnl-NtrB-like cd16918
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...
 713-817 8.47e-06

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: 45.47  E-value: 8.47e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 713 LTQILMNLVSNAGHALNSTAEEERILTVSLFS---DSPGF---TSVRVTDNGEGIAKENMSRLFRYGFTTKKKGHGFGLH 786
Cdd:cd16918    1 LIQVFLNLVRNAAQALAGSGGEIILRTRTQRQvtlGHPRHrlaLRVSVIDNGPGIPPDLQDTIFYPMVSGRENGTGLGLA 80

                         90       100       110
                 ....*....|....*....|....*....|.
gi 506428315 787 SCALAAQEMGGSLFAESEgPGQgASFTMRIP 817
Cdd:cd16918   81 IAQNIVSQHGGVIECDSQ-PGH-TVFSVSLP 109
PRK11100 PRK11100
sensory histidine kinase CreC; Provisional
 669-817 9.43e-06

sensory histidine kinase CreC; Provisional


Pssm-ID: 236846 [Multi-domain]  Cd Length: 475  Bit Score: 49.07  E-value: 9.43e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 669 VEPLSLKDVVEEVLTINAAGLKRNTIQVVRDYQPVpDVAADRRKLTQILMNLVSNaghALNSTAEEERIlTVSLFSDSpG 748
Cdd:PRK11100 326 LEPVALAALLEELVEAREAQAAAKGITLRLRPDDA-RVLGDPFLLRQALGNLLDN---AIDFSPEGGTI-TLSAEVDG-E 399

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 506428315 749 FTSVRVTDNGEGIAKENMSRLFRYGFT-----TKKKGHGFGLhscALAAQEM---GGSLFAESeGPGQGASFTMRIP 817
Cdd:PRK11100 400 QVALSVEDQGPGIPDYALPRIFERFYSlprpaNGRKSTGLGL---AFVREVArlhGGEVTLRN-RPEGGVLATLTLP 472
HATPase_CheA-like cd16916
Histidine kinase-like ATPase domain of the chemotaxis protein histidine kinase CheA, and some ...
 705-817 1.01e-05

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: 46.81  E-value: 1.01e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 705 DVAADRRKLTQI---LMNLVSNAG-HALNSTAEEER-------ILTVSLFSDSpGFTSVRVTDNGEGIAKENMSR----- 768
Cdd:cd16916   28 DTELDKSVLEKLadpLTHLLRNAVdHGIEAPEERLAagkppegTITLRAEHQG-NQVVIEVSDDGRGIDREKIREkaier 106

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 506428315 769 -------------------LFRYGFTTKKK-----GHGFGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:cd16916  107 glitadeaatlsddevlnlIFAPGFSTAEQvtdvsGRGVGMDVVKRSIESLGGTIEVESE-PGQGTTFTIRLP 178
PAS_8 pfam13188
PAS domain; PAS domains are involved in many signalling proteins where they are used as a ...
 293-349 1.09e-05

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: 43.69  E-value: 1.09e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 506428315  293 NLLQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMPPEFRKN 349
Cdd:pfam13188   1 ERLRALFESSPDGILVLDEGGRIIYVNPAALELLGYELLGELLGELLDLLDPLLEDA 57
HATPase_YcbM-like cd16947
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...
 708-816 1.40e-05

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: 45.20  E-value: 1.40e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 708 ADRRKLTQILMNLVSNAghalNSTAEEERILTVSLFSDSPGfTSVRVTDNGEGIAKENMSRLFRYGFT------TKKKGH 781
Cdd:cd16947   16 ANTEALQRILKNLISNA----IKYGSDGKFLGMTLREDEKH-VYIDIWDKGKGISETEKDHVFERLYTledsrnSAKQGN 90

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 506428315 782 GFGLHSCALAAQEMGGSLFAESEgPGQGASFTMRI 816
Cdd:cd16947   91 GLGLTITKRLAESMGGSIYVNSK-PYEKTVFTVTL 124
HATPase_SpaK_NisK-like cd16975
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...
 709-816 1.64e-05

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: 44.37  E-value: 1.64e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 709 DRRKLTQILMNLVSNAghalNSTAEEERILTVSLFSDSPGFTSVrVTDNGEGIAKENMSRLFRYGFTTK----KKGH-GF 783
Cdd:cd16975    1 DTLLLSRALINIISNA----CQYAPEGGTVSISIYDEEEYLYFE-IWDNGHGFSEQDLKKALELFYRDDtsrrSGGHyGM 75

                         90       100       110
                 ....*....|....*....|....*....|...
gi 506428315 784 GLHSCALAAQEMGGSLFAESEGPGqGASFTMRI 816
Cdd:cd16975   76 GLYIAKNLVEKHGGSLIIENSQKG-GAEVTVKI 107
PRK13557 PRK13557
histidine kinase; Provisional
 694-821 1.97e-05

histidine kinase; Provisional


Pssm-ID: 237425 [Multi-domain]  Cd Length: 540  Bit Score: 48.13  E-value: 1.97e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 694 IQVVRDYQP-VPDVAADRRKLTQILMNLVSNAGHALNStAEEERILTVSLFSDSPG-----------FTSVRVTDNGEGI 761
Cdd:PRK13557 258 VTIETDLAPdLWNCRIDPTQAEVALLNVLINARDAMPE-GGRVTIRTRNVEIEDEDlamyhglppgrYVSIAVTDTGSGM 336

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 506428315 762 AKENMSRLFRYGFTTKKKGHGFGLhscALA-----AQEMGGSLFAESEgPGQGASFTMRIPSNDG 821
Cdd:PRK13557 337 PPEILARVMDPFFTTKEEGKGTGL---GLSmvygfAKQSGGAVRIYSE-VGEGTTVRLYFPASDQ 397
PRK09776 PRK09776
putative diguanylate cyclase; Provisional
 255-339 2.65e-05

putative diguanylate cyclase; Provisional


Pssm-ID: 182070 [Multi-domain]  Cd Length: 1092  Bit Score: 48.13  E-value: 2.65e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315  255 VRMGEALNRMIQNMEESKKRLI----DINELESAQEALRKSENLLQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTR 330
Cdd:PRK09776  494 VRHIRALANRVLNKDGEVERLLginmDMTEVRQLNEALFQEKERLHITLDSIGEAVVCTDMAMKVTFMNPVAEKMTGWTQ 573


                  ....*....
gi 506428315  331 DEMLGQPLE 339
Cdd:PRK09776  574 EEALGVPLL 582
HATPase_TutC-TodS-like cd16925
Histidine kinase-like ATPase domain of hybrid sensor histidine kinases similar to Pseudomonas ...
 709-817 3.29e-05

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: 43.64  E-value: 3.29e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 709 DRRKLTQILMNLVSNaghALNSTAEEERILTVSLFSDSPGFTsVRVTDNGEGIAKENMSRL---FRYGF---TTKKKGHG 782
Cdd:cd16925    1 DAEKYERVVLNLLSN---AFKFTPDGGRIRCILEKFRLNRFL-LTVSDSGPGIPPNLREEIferFRQGDgssTRAHGGTG 76

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 506428315 783 FGLhSCALAAQEMGGSLFAESEGPGQGASFTMRIP 817
Cdd:cd16925   77 LGL-SIVKEFVELHGGTVTVSDAPGGGALFQVELP 110
PRK10604 PRK10604
sensor protein RstB; Provisional
 707-818 8.35e-05

sensor protein RstB; Provisional


Pssm-ID: 236724 [Multi-domain]  Cd Length: 433  Bit Score: 45.75  E-value: 8.35e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 707 AADRRKLTQILMNLVSNAGHALNSTaeeeriLTVSLFSDSpGFTSVRVTDNGEGIAKENMSRLFRyGFT-------TKKK 779
Cdd:PRK10604 314 ALDMRLMERVLDNLLNNALRYAHSR------VRVSLLLDG-NQACLIVEDDGPGIPPEERERVFE-PFVrldpsrdRATG 385

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 506428315 780 GHGFGL---HSCALAaqeMGGSLFAESEGPGqGASFTMRIPS 818
Cdd:PRK10604 386 GCGLGLaivHSIALA---MGGSVNCDESELG-GARFSFSWPV 423
PRK10618 PRK10618
phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
 632-817 1.18e-04

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


Pssm-ID: 236726 [Multi-domain]  Cd Length: 894  Bit Score: 45.69  E-value: 1.18e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 632 AEEQNALLNEINELSGYTSHISEIVKTQ-QEWSKVPGLVEPLSLKD-VVEEVL-TINAAGLkrntiQVVRDYQPVPD--V 706
Cdd:PRK10618 485 QPELDQLAEQSDVLVRLVDNIQLLNMLEtQDWKPEQELFSLQDLIDeVLPEVLpAIKRKGL-----QLLIHNHLKAEqlR 559

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 707 AADRRKLTQILMNLVSnagHALNSTAEEERILTVSLFSDSPGFTSVRVTDNGEGIAKENMSRLfRYGFTTK----KKGHG 782
Cdd:PRK10618 560 IGDRDALRKILLLLLN---YAITTTAYGKITLEVDQDESSPDRLTIRILDTGAGVSIKELDNL-HFPFLNQtqgdRYGKA 635

                        170       180       190
                 ....*....|....*....|....*....|....*..
gi 506428315 783 FGL--HSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:PRK10618 636 SGLtfFLCNQLCRKLGGHLTIKSR-EGLGTRYSIHLK 671
PAS smart00091
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 423-472 2.06e-04

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: 40.08  E-value: 2.06e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 506428315   423 EWERTFDAVPDLIAIIDSGHKIVRVNKAMAAAFGTTPDKMVGASCTQVVH 472
Cdd:smart00091   2 RLRAILESLPDGIFVLDLDGRILYANPAAEELLGYSPEELIGKSLLELIH 51
PAS pfam00989
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
 422-530 2.73e-04

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: 41.25  E-value: 2.73e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315  422 KEWERTFDAVPDLIAIIDSGHKIVRVNKAMAAAFGTTPDKMVGASCTQVVHctsgPPDFCPHVLSLTD-----GKYHDAE 496
Cdd:pfam00989   1 EDLRAILESLPDGIFVVDEDGRILYVNAAAEELLGLSREEVIGKSLLDLIP----EEDDAEVAELLRQallqgEESRGFE 76

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 506428315  497 V---YDDNLGAHLHVSTSPIRDAEGVITASVHIMRDI 530
Cdd:pfam00989  77 VsfrVPDGRPRHVEVRASPVRDAGGEILGFLGVLRDI 113
PAS_8 pfam13188
PAS domain; PAS domains are involved in many signalling proteins where they are used as a ...
 424-456 3.18e-04

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: 39.45  E-value: 3.18e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 506428315  424 WERTFDAVPDLIAIIDSGHKIVRVNKAMAAAFG 456
Cdd:pfam13188   3 LRALFESSPDGILVLDEGGRIIYVNPAALELLG 35
PRK10841 PRK10841
two-component system sensor histidine kinase RcsC;
703-817 3.19e-04

two-component system sensor histidine kinase RcsC;


Pssm-ID: 182772 [Multi-domain]  Cd Length: 924  Bit Score: 44.58  E-value: 3.19e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 703 VPD-VAADRRKLTQILMNLVSNAghaLNSTAEEERILTVSLFSDspgFTSVRVTDNGEGI-AKENMsRLFR------YGF 774
Cdd:PRK10841 552 VPVaLNGDPMRLQQVISNLLSNA---IKFTDTGCIVLHVRVDGD---YLSFRVRDTGVGIpAKEVV-RLFDpffqvgTGV 624

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 506428315 775 TTKKKGHGFGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:PRK10841 625 QRNFQGTGLGLAICEKLINMMDGDISVDSE-PGMGSQFTIRIP 666
HATPase_RstB-like cd16939
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...
 713-817 4.75e-04

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: 40.11  E-value: 4.75e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 713 LTQILMNLVSNAGHALNSTAEeeriltVSLfSDSPGFTSVRVTDNGEGIAKENMSRLFR------YGFTTKKKGHGFGLH 786
Cdd:cd16939    1 MARALDNLLRNALRYAHRTVR------IAL-LVSGGRLTLIVEDDGPGIPAAARERVFEpfvrldPSRDRATGGFGLGLA 73

                         90       100       110
                 ....*....|....*....|....*....|.
gi 506428315 787 SCALAAQEMGGSLFAEsEGPGQGASFTMRIP 817
Cdd:cd16939   74 IVHRVALWHGGHVECD-DSELGGACFRLTWP 103
TyrR COG3283
Transcriptional regulator TyrR of aromatic amino acids metabolism [Transcription, Amino acid ...
 295-343 5.62e-04

Transcriptional regulator TyrR of aromatic amino acids metabolism [Transcription, Amino acid transport and metabolism];


Pssm-ID: 442513 [Multi-domain]  Cd Length: 514  Bit Score: 43.25  E-value: 5.62e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 506428315 295 LQTLINTTRDAIIAIDQTGRITLFNHAGEKMFQRTRDEMLGQPLEPLMP 343
Cdd:COG3283   82 LDALLEALPDPVFSIDLKGKIELANPAALSLLGLSEEELIGQPLSELLK 130
HATPase_BaeS-like cd16946
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...
 709-817 7.55e-04

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: 39.75  E-value: 7.55e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 709 DRRKLTQILMNLVSNaghALNSTAEEERILTVSlfSDSPGFTSVRVTDNGEGIAKENMSRLFRYGFTTKKK------GHG 782
Cdd:cd16946    1 DRDRLQQLFVNLLEN---SLRYTDTGGKLRIRA--AQTPQEVRLDVEDSAPGVSDDQLARLFERFYRVESSrnrasgGSG 75

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 506428315 783 FGLHSCALAAQEMGGSLFAEsEGPGQGASFTMRIP 817
Cdd:cd16946   76 LGLAICHNIALAHGGTISAE-HSPLGGLRLVLTLP 109
HATPase_PDK-like cd16929
Histidine kinase-like ATPase domain of pyruvate dehydrogenase kinase, branched-chain ...
 751-807 8.20e-04

Histidine kinase-like ATPase domain of pyruvate dehydrogenase kinase, branched-chain alpha-ketoacid dehydrogenase kinase and related domains; This family includes the histidine kinase-like ATPase (HATPase) domains of all four PDK isoforms (pyruvate dehydrogenase kinases 1-4) that have been described in mammals, and other PDKs including Saccharomyces Pkp1p and Pkp2p. PDKs and phosphatases tightly regulate the mitochondrial pyruvate dehydrogenase complex (PDC) by reversible phosphorylation. PDC catalyzes the oxidative decarboxylation of pyruvate to acetyl-CoA, connecting glycolysis and the TCA acid cycle. Also included in this family is mammalian branched-chain alpha-ketoacid dehydrogenase kinase (BDK), a mitochondrial protein kinase that phosphorylates a subunit of the branched-chain a-ketoacid dehydrogenase (BCKD) complex, which catalyzes the oxidative decarboxylation of branched-chain alpha-ketoacids derived from leucine, isoleucine, and valine, a rate-limiting step in the oxidative degradation of these branched-chain amino acids.


Pssm-ID: 340406 [Multi-domain]  Cd Length: 169  Bit Score: 41.17  E-value: 8.20e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 506428315 751 SVRVTDNGEGIAKENMSRLFRYGFTTKKK-------------------GHGFGLHSCALAAQEMGGSLFAES-EGPG 807
Cdd:cd16929   85 TIKISDRGGGIPREDLARLFSYMYSTAPQpslddfsdlisgtqpsplaGFGYGLPMSRLYAEYFGGDLDLQSmEGYG 161
envZ PRK09467
osmolarity sensor protein; Provisional
 199-270 8.52e-04

osmolarity sensor protein; Provisional


Pssm-ID: 236531 [Multi-domain]  Cd Length: 435  Bit Score: 42.59  E-value: 8.52e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 506428315 199 LLILAIAI-GALIFAVFQgiavsgsiSKPLDNLVKAAMEIGKGNLNVSIEEKGDVEIVRMGEALNRM---IQNMEE 270
Cdd:PRK09467 160 LAIGLLSVaGGWLFIRIQ--------NRPLVALEHAALQVGKGEIPPPLREYGASEVRSVTRAFNQMaagIKQLED 227
PRK13558 PRK13558
bacterio-opsin activator; Provisional
 400-547 9.06e-04

bacterio-opsin activator; Provisional


Pssm-ID: 237426 [Multi-domain]  Cd Length: 665  Bit Score: 42.90  E-value: 9.06e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 400 VVGIARDISERKRTEENIIRAKKEW-ERTFDAVPDLIAIIDSGHK---IVRVNKAMAAAFGTTPDKMVGASCTQVvhctS 475
Cdd:PRK13558 125 VPEHSRDTEARMPISDLTVESDRRLkERALDEAPVGITIADATLPdepLIYINDAFERITGYSPDEVLGRNCRFL----Q 200

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 506428315 476 GPPDFCPHVLSLTDG--KYHDAEVYDDNLGAH-----LHVSTSPIRDAEGVITASVHIMRDISDRKRAEAELAKTHAKL 547
Cdd:PRK13558 201 GEDTNEERVAELREAidEERPTSVELRNYRKDgstfwNQVDIAPIRDEDGTVTHYVGFQTDVTERKEAELALQRERRKL 279
PAS cd00130
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 432-530 1.12e-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. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction.


Pssm-ID: 238075 [Multi-domain]  Cd Length: 103  Bit Score: 39.15  E-value: 1.12e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 432 PDLIAIIDSGHKIVRVNKAMAAAFGTTPDKMVGASCTQVVHCTSGPPDFCPHVLSLTDGKYHDAEVY---DDNLGAHLHV 508
Cdd:cd00130    2 PDGVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLSGGEPVTLEVRlrrKDGSVIWVLV 81

                         90       100
                 ....*....|....*....|..
gi 506428315 509 STSPIRDAEGVITASVHIMRDI 530
Cdd:cd00130   82 SLTPIRDEGGEVIGLLGVVRDI 103
HATPase_PhoQ-like cd16954
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...
 694-816 1.34e-03

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: 39.54  E-value: 1.34e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 694 IQVVRDYQPVPDVAADRRKLTQILMNLVSNAG-HALnstaeeeRILTVSLFSDSPGFTSVrVTDNGEGIAKENMSRLFRY 772
Cdd:cd16954   19 VSISLDISPELRFPGERNDLMELLGNLLDNACkWCL-------EFVEVTARQTDGGLHLI-VDDDGPGVPESQRSKIFQR 90

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 506428315 773 G--FTTKKKGHGFGLHSCALAAQEMGGSLFAESEGPGqGASFTMRI 816
Cdd:cd16954   91 GqrLDEQRPGQGLGLAIAKEIVEQYGGELSLSDSPLG-GARFEVVF 135
HATPase_EcPhoR-like cd16952
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...
 719-818 1.59e-03

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: 38.72  E-value: 1.59e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 719 NLVSNAghaLNSTAEEERIlTVSLFSDSPGfTSVRVTDNGEGIAKENMSRLFRYGF------TTKKKGHGFGLHSCALAA 792
Cdd:cd16952    7 NLVSNA---VKYTPPSDTI-TVRWSQEESG-ARLSVEDTGPGIPPEHIPRLTERFYrvdierCRNTGGTGLGLAIVKHVM 81

                         90       100
                 ....*....|....*....|....*.
gi 506428315 793 QEMGGSLFAESEgPGQGASFTMRIPS 818
Cdd:cd16952   82 SRHDARLLIASE-LGKGSRFTCLFPS 106
phoR PRK11006
phosphate regulon sensor histidine kinase PhoR;
672-818 2.06e-03

phosphate regulon sensor histidine kinase PhoR;


Pssm-ID: 182895 [Multi-domain]  Cd Length: 430  Bit Score: 41.53  E-value: 2.06e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 672 LSLKDVVE-----EVLTINAAGLKRNTIQVVRDYQPVPDVAADRRKLTQILMNLVSNAghaLNSTAEEERIlTVSLFSDS 746
Cdd:PRK11006 272 IDLNEKVDvpmmlRVLEREAQTLSQGKHTITFEVDNSLKVFGNEDQLRSAISNLVYNA---VNHTPEGTHI-TVRWQRVP 347

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 506428315 747 PGfTSVRVTDNGEGIAKENMSRLF-RYGFTTKKK-----GHGFGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIPS 818
Cdd:PRK11006 348 QG-AEFSVEDNGPGIAPEHIPRLTeRFYRVDKARsrqtgGSGLGLAIVKHALSHHDSRLEIESE-VGKGTRFSFVLPE 423
HATPase_CpxA-like cd16949
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...
 713-817 2.37e-03

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: 38.08  E-value: 2.37e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 713 LTQILMNLVSNAGHALNSTaeeeriltVSL-FSDSPGFTSVRVTDNGEGIAKENMSRLFRYGF------TTKKKGHGFGL 785
Cdd:cd16949    1 LARALENVLRNALRYSPSK--------ILLdISQDGDQWTITITDDGPGVPEDQLEQIFLPFYrvdsarDRESGGTGLGL 72

                         90       100       110
                 ....*....|....*....|....*....|..
gi 506428315 786 HSCALAAQEMGGSLFAESEGPGqGASFTMRIP 817
Cdd:cd16949   73 AIAERAIEQHGGKIKASNRKPG-GLRVRIWLP 103
HATPase_UhpB-NarQ-NarX-like cd16917
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ...
 715-817 3.22e-03

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: 37.53  E-value: 3.22e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 715 QILMNLVSNA-GHALNSTAeeerilTVSLFSDSPGFTsVRVTDNGEGIAKEnmsrlfrygftTKKKGHGFGLHSCALAAQ 793
Cdd:cd16917    3 RIVQEALTNAlKHAGASRV------RVTLSYTADELT-LTVVDDGVGFDGP-----------APPGGGGFGLLGMRERAE 64

                         90       100
                 ....*....|....*....|....
gi 506428315 794 EMGGSLFAESEgPGQGASFTMRIP 817
Cdd:cd16917   65 LLGGTLTIGSR-PGGGTRVTARLP 87
dpiB PRK15053
sensor histidine kinase DpiB; Provisional
 709-817 3.39e-03

sensor histidine kinase DpiB; Provisional


Pssm-ID: 185013 [Multi-domain]  Cd Length: 545  Bit Score: 40.97  E-value: 3.39e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 709 DRRKLTQILMNLVSNAGHALNSTAEEERILTVSLfSDSPGFTSVRVTDNGEGIAKENMSRLFRYGFTTKKKG---HGFGL 785
Cdd:PRK15053 429 DSTEFAAIVGNLLDNAFEASLRSDEGNKIVELFL-SDEGDDVVIEVADQGCGVPESLRDKIFEQGVSTRADEpgeHGIGL 507

                         90       100       110
                 ....*....|....*....|....*....|..
gi 506428315 786 HSCALAAQEMGGSLFAESEGPgQGASFTMRIP 817
Cdd:PRK15053 508 YLIASYVTRCGGVITLEDNDP-CGTLFSIFIP 538
YesM COG2972
Sensor histidine kinase YesM [Signal transduction mechanisms];
716-817 3.79e-03

Sensor histidine kinase YesM [Signal transduction mechanisms];


Pssm-ID: 442211 [Multi-domain]  Cd Length: 445  Bit Score: 40.77  E-value: 3.79e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 716 ILMNLVSNA-GHALNSTAEEERIlTVSLFSDsPGFTSVRVTDNGEGIAKENMSRLFRyGFTTKKKGHGFGLHSCA--LAA 792
Cdd:COG2972  340 ILQPLVENAiEHGIEPKEGGGTI-RISIRKE-GDRLVITVEDNGVGMPEEKLEKLLE-ELSSKGEGRGIGLRNVRerLKL 416

                         90       100
                 ....*....|....*....|....*
gi 506428315 793 QEMGGSLFAESEGPGQGASFTMRIP 817
Cdd:COG2972  417 YYGEEYGLEIESEPGEGTTVTIRIP 441
cpxA PRK09470
envelope stress sensor histidine kinase CpxA;
222-283 5.39e-03

envelope stress sensor histidine kinase CpxA;


Pssm-ID: 236532 [Multi-domain]  Cd Length: 461  Bit Score: 40.30  E-value: 5.39e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 506428315 222 SISKPLDNLVKAAMEIGKGNLNVSIE-EKGDVEIVRMGEALNRMI---QNMEESKKRLI-DI-NELES 283
Cdd:PRK09470 189 SLAKPARKLKNAADEVAQGNLRQHPElETGPQEFRQAGASFNQMVtalERMMTSQQRLLsDIsHELRT 256
HATPase_c_5 pfam14501
GHKL domain; This family represents the structurally related ATPase domains of histidine ...
 713-799 7.22e-03

GHKL domain; This family represents the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90.


Pssm-ID: 433996 [Multi-domain]  Cd Length: 102  Bit Score: 36.81  E-value: 7.22e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315  713 LTQILMNLVSNAGHALnSTAEEERILTVSLFSdSPGFTSVRVtDNgegiAKENMSRLFRYGFTTKKKG--HGFGLHSCAL 790
Cdd:pfam14501   6 LCVIFGNLLDNAIEAC-SKIDDNRFIRLKIRE-KQNFLIIRI-EN----TYEGELKFEGKLPSTKTKGdgHGIGLKSIRR 78


                  ....*....
gi 506428315  791 AAQEMGGSL 799
Cdd:pfam14501  79 IVKKYGGNL 87
ComP COG4585
Signal transduction histidine kinase ComP [Signal transduction mechanisms];
624-817 7.52e-03

Signal transduction histidine kinase ComP [Signal transduction mechanisms];


Pssm-ID: 443642 [Multi-domain]  Cd Length: 252  Bit Score: 38.83  E-value: 7.52e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 624 LHD--------LSLHLAEEQNALLNEINELSGYTSHISEIVKTQQE------WSKVPGLVEPLSLKDVVEEVLtinAAGL 689
Cdd:COG4585   61 LHDgvgqslsaIKLQLEAARRLLDADPEAAREELEEIRELAREALAelrrlvRGLRPPALDDLGLAAALEELA---ERLL 137

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506428315 690 KRNTIQVVRDYQPVPDVAADRRKLT--QILMNLVSNAG-HALNSTAeeerilTVSLfSDSPGFTSVRVTDNGEGIAkenm 766
Cdd:COG4585  138 RAAGIRVELDVDGDPDRLPPEVELAlyRIVQEALTNALkHAGATRV------TVTL-EVDDGELTLTVRDDGVGFD---- 206

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 506428315 767 srlfrygfTTKKKGHGFGLHSCALAAQEMGGSLFAESEgPGQGASFTMRIP 817
Cdd:COG4585  207 --------PEAAPGGGLGLRGMRERAEALGGTLTIGSA-PGGGTRVRATLP 248
 
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

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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