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Conserved domains on  [gi|2728967322|ref|WP_343666735|]
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Cache 3/Cache 2 fusion domain-containing protein [Enterobacter sp.]

Protein Classification

methyl-accepting chemotaxis protein( domain architecture ID 12182752)

methyl-accepting chemotaxis protein (MCP) is a bacterial receptor that mediates chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behavior

CATH:  1.10.287.950
Gene Ontology:  GO:0006935
PubMed:  18165013|20738376
SCOP:  4003862

Graphical summary

 Zoom to residue level

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List of domain hits

 Name Accession Description Interval E-value
Tar COG0840
Methyl-accepting chemotaxis protein (MCP) [Signal transduction mechanisms];
299-641 1.28e-84

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


:

Pssm-ID: 440602 [Multi-domain]  Cd Length: 533  Bit Score: 275.36  E-value: 1.28e-84
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 299 IVGEVDKSVLLSSVTAMRDRFLLAGVVLSILFAGLFVVLIRRVLTRPLRNVIHLARQYAAGDLRSSLPVTRHDEVGQLID 378
Cdd:COG0840   163 LAALLEAAALALAAAALALALLAAALLALVALAIILALLLSRSITRPLRELLEVLERIAEGDLTVRIDVDSKDEIGQLAD 242

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 379 AINGIGGGLQKIVLQVREAAGEIHLGTNALAADTGEISEQINKQASSVEETSASMEQLAATVQQNAANMEQTQQLVGETS 458
Cdd:COG0840   243 AFNRMIENLRELVGQVRESAEQVASASEELAASAEELAAGAEEQAASLEETAAAMEELSATVQEVAENAQQAAELAEEAS 322

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 459 LAVHQGGETVTHAVSTMDDIR--------------EASKRIEDITRVIESIAFQTNILALNAAVEAARAGEHGKGFAVVA 524
Cdd:COG0840   323 ELAEEGGEVVEEAVEGIEEIResveetaetieelgESSQEIGEIVDVIDDIAEQTNLLALNAAIEAARAGEAGRGFAVVA 402

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 525 QEVRALAGRSANAVKEIEQLIGD--------------TLRKVSEGHALSEKTRLAMDDIIIHIDNISQLVTEINHASREQ 590
Cdd:COG0840   403 DEVRKLAERSAEATKEIEELIEEiqseteeaveameeGSEEVEEGVELVEEAGEALEEIVEAVEEVSDLIQEIAAASEEQ 482

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2728967322 591 SAGIGQVNLAMTHIGEASHINADRISRSEQTAQTLREKGSHLAQLVSLFQL 641
Cdd:COG0840   483 SAGTEEVNQAIEQIAAAAQENAASVEEVAAAAEELAELAEELQELVSRFKL 533
Cache_3-Cache_2 pfam17201
Cache 3/Cache 2 fusion domain; The Cache_3-Cache_2 domain likely originated as a fusion of ...
 34-317 2.52e-78

Cache 3/Cache 2 fusion domain; The Cache_3-Cache_2 domain likely originated as a fusion of sCache_3 and sCache_2 domains.


:

Pssm-ID: 465378 [Multi-domain]  Cd Length: 298  Bit Score: 251.11  E-value: 2.52e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322  34 SQKASQQLEALAVEDLHNQSTGMVDMVQMFNTSLSEEVESYTRLFTTFLPQPLNSDPSQPQTINGLSVPLLKGGDTGL-- 111
Cdd:pfam17201   1 SRSAKGEVRALAESDLEEQVQDLADMLETQDESLRESVDSDLNVFRKLLPGSWRAVNQFTVDVGGVSLPVLYLGGTWLgq 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 112 ----HENNTLSDDFLNRTGAISTLFVRSGNDFVRVATSLRKENGERAMGTVLDASSPAFAAVNKGEVYRGLALLFGKRYI 187
Cdd:pfam17201  81 nrdpNKNFPLVDEFTELTGGTATVFQRMNDDLLRVATSVKKEDGSRAIGTYIPASSPVYKAVLAGETYVGRAKVFGKWYV 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 188 TQYQPVKNAEGQVIAIVFVGVDITHSWNVMREKILNRRLGESGHFFVLDrSNGKTRGQYLFHAGEEGQ---LPKWDDATQ 264
Cdd:pfam17201 161 TAYEPIRDADGKVIGILYVGVPQDEALASLRKAIKKVKIGKTGYLYVLD-GKGDQKGKFIVHPTLEGKnilDAKDADGEP 239

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2728967322 265 --QQLLGDKPGTLE---RVSDDGRTLKMAYTPLQGWNWTIVGEVDKSVLLSSVTAMRD 317
Cdd:pfam17201 240 fvKKLLQKKVGSLEypwKADAAGRDKLAAFTYFEPWDWVIVASVYEDEFLAATNRLLN 297
 
Name Accession Description Interval E-value
Tar COG0840
Methyl-accepting chemotaxis protein (MCP) [Signal transduction mechanisms];
299-641 1.28e-84

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


Pssm-ID: 440602 [Multi-domain]  Cd Length: 533  Bit Score: 275.36  E-value: 1.28e-84
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 299 IVGEVDKSVLLSSVTAMRDRFLLAGVVLSILFAGLFVVLIRRVLTRPLRNVIHLARQYAAGDLRSSLPVTRHDEVGQLID 378
Cdd:COG0840   163 LAALLEAAALALAAAALALALLAAALLALVALAIILALLLSRSITRPLRELLEVLERIAEGDLTVRIDVDSKDEIGQLAD 242

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 379 AINGIGGGLQKIVLQVREAAGEIHLGTNALAADTGEISEQINKQASSVEETSASMEQLAATVQQNAANMEQTQQLVGETS 458
Cdd:COG0840   243 AFNRMIENLRELVGQVRESAEQVASASEELAASAEELAAGAEEQAASLEETAAAMEELSATVQEVAENAQQAAELAEEAS 322

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 459 LAVHQGGETVTHAVSTMDDIR--------------EASKRIEDITRVIESIAFQTNILALNAAVEAARAGEHGKGFAVVA 524
Cdd:COG0840   323 ELAEEGGEVVEEAVEGIEEIResveetaetieelgESSQEIGEIVDVIDDIAEQTNLLALNAAIEAARAGEAGRGFAVVA 402

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 525 QEVRALAGRSANAVKEIEQLIGD--------------TLRKVSEGHALSEKTRLAMDDIIIHIDNISQLVTEINHASREQ 590
Cdd:COG0840   403 DEVRKLAERSAEATKEIEELIEEiqseteeaveameeGSEEVEEGVELVEEAGEALEEIVEAVEEVSDLIQEIAAASEEQ 482

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2728967322 591 SAGIGQVNLAMTHIGEASHINADRISRSEQTAQTLREKGSHLAQLVSLFQL 641
Cdd:COG0840   483 SAGTEEVNQAIEQIAAAAQENAASVEEVAAAAEELAELAEELQELVSRFKL 533
Cache_3-Cache_2 pfam17201
Cache 3/Cache 2 fusion domain; The Cache_3-Cache_2 domain likely originated as a fusion of ...
 34-317 2.52e-78

Cache 3/Cache 2 fusion domain; The Cache_3-Cache_2 domain likely originated as a fusion of sCache_3 and sCache_2 domains.


Pssm-ID: 465378 [Multi-domain]  Cd Length: 298  Bit Score: 251.11  E-value: 2.52e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322  34 SQKASQQLEALAVEDLHNQSTGMVDMVQMFNTSLSEEVESYTRLFTTFLPQPLNSDPSQPQTINGLSVPLLKGGDTGL-- 111
Cdd:pfam17201   1 SRSAKGEVRALAESDLEEQVQDLADMLETQDESLRESVDSDLNVFRKLLPGSWRAVNQFTVDVGGVSLPVLYLGGTWLgq 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 112 ----HENNTLSDDFLNRTGAISTLFVRSGNDFVRVATSLRKENGERAMGTVLDASSPAFAAVNKGEVYRGLALLFGKRYI 187
Cdd:pfam17201  81 nrdpNKNFPLVDEFTELTGGTATVFQRMNDDLLRVATSVKKEDGSRAIGTYIPASSPVYKAVLAGETYVGRAKVFGKWYV 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 188 TQYQPVKNAEGQVIAIVFVGVDITHSWNVMREKILNRRLGESGHFFVLDrSNGKTRGQYLFHAGEEGQ---LPKWDDATQ 264
Cdd:pfam17201 161 TAYEPIRDADGKVIGILYVGVPQDEALASLRKAIKKVKIGKTGYLYVLD-GKGDQKGKFIVHPTLEGKnilDAKDADGEP 239

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2728967322 265 --QQLLGDKPGTLE---RVSDDGRTLKMAYTPLQGWNWTIVGEVDKSVLLSSVTAMRD 317
Cdd:pfam17201 240 fvKKLLQKKVGSLEypwKADAAGRDKLAAFTYFEPWDWVIVASVYEDEFLAATNRLLN 297
PRK15048 PRK15048
methyl-accepting chemotaxis protein II; Provisional
 320-641 4.62e-78

methyl-accepting chemotaxis protein II; Provisional


Pssm-ID: 185008 [Multi-domain]  Cd Length: 553  Bit Score: 258.40  E-value: 4.62e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 320 LLAGVVLSILFAGLFVvlIRRVLTRPLRNVIHLARQYAAGDLRSSLPVTRHDEVGQLIDAINGIGGGLQKIVLQVREAAG 399
Cdd:PRK15048  196 VIALVVVLILLVAWYG--IRRMLLTPLAKIIAHIREIAGGNLANTLTIDGRSEMGDLAQSVSHMQRSLTDTVTHVREGSD 273

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 400 EIHLGTNALAADTGEISEQINKQASSVEETSASMEQLAATVQQNAANMEQTQQLVGETSLAVHQGGETVTHAVSTMDDIR 479
Cdd:PRK15048  274 AIYAGTREIAAGNTDLSSRTEQQASALEETAASMEQLTATVKQNADNARQASQLAQSASDTAQHGGKVVDGVVKTMHEIA 353

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 480 EASKRIEDITRVIESIAFQTNILALNAAVEAARAGEHGKGFAVVAQEVRALAGRSANAVKEIEQLIGDTLRKVSEGHALS 559
Cdd:PRK15048  354 DSSKKIADIISVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVAGEVRNLASRSAQAAKEIKALIEDSVSRVDTGSVLV 433

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 560 EKTRLAMDDIIIHIDNISQLVTEINHASREQSAGIGQVNLAMTHIGEASHINADRISRSEQTAQTLREKGSHLAQLVSLF 639
Cdd:PRK15048  434 ESAGETMNNIVNAVTRVTDIMGEIASASDEQSRGIDQVALAVSEMDRVTQQNASLVQESAAAAAALEEQASRLTQAVSAF 513


                  ..
gi 2728967322 640 QL 641
Cdd:PRK15048  514 RL 515
MA smart00283
Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Thought to undergo ...
 393-640 7.96e-65

Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Thought to undergo reversible methylation in response to attractants or repellants during bacterial chemotaxis.


Pssm-ID: 214599 [Multi-domain]  Cd Length: 262  Bit Score: 214.07  E-value: 7.96e-65
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322  393 QVREAAGEIHLGTNALAADTGEISEQINKQASSVEETSASMEQLAATVQQNAANMEQTQQLVGETSLAVHQGGETVTHAV 472
Cdd:smart00283   1 DVSEAVEEIAAGAEEQAEELEELAERMEELSASIEEVAANADEIAATAQSAAEAAEEGREAVEDAITAMDQIREVVEEAV 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322  473 STMDDIREASKRIEDITRVIESIAFQTNILALNAAVEAARAGEHGKGFAVVAQEVRALAGRSANAVKEIEQLIGD----- 547
Cdd:smart00283  81 SAVEELEESSDEIGEIVSVIDDIADQTNLLALNAAIEAARAGEAGRGFAVVADEVRKLAERSAESAKEIESLIKEiqeet 160

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322  548 ---------TLRKVSEGHALSEKTRLAMDDIIIHIDNISQLVTEINHASREQSAGIGQVNLAMTHIGEASHINADRISRS 618
Cdd:smart00283 161 neavaameeSSSEVEEGVELVEETGDALEEIVDSVEEIADLVQEIAAATDEQAAGSEEVNAAIDEIAQVTQETAAMSEEI 240

                          250       260
                   ....*....|....*....|..
gi 2728967322  619 EQTAQTLREKGSHLAQLVSLFQ 640
Cdd:smart00283 241 SAAAEELSGLAEELDELVERFK 262
MCP_signal cd11386
Methyl-accepting chemotaxis protein (MCP), signaling domain; Methyl-accepting chemotaxis ...
 422-613 1.54e-53

Methyl-accepting chemotaxis protein (MCP), signaling domain; Methyl-accepting chemotaxis proteins (MCPs or chemotaxis receptors) are an integral part of the transmembrane protein complex that controls bacterial chemotaxis, together with the histidine kinase CheA, the receptor-coupling protein CheW, receptor-modification enzymes, and localized phosphatases. MCPs contain a four helix trans membrane region, an N-terminal periplasmic ligand binding domain, and a C-terminal HAMP domain followed by a cytoplasmic signaling domain. This C-terminal signaling domain dimerizes into a four-helix bundle and interacts with CheA through the adaptor protein CheW.


Pssm-ID: 206779 [Multi-domain]  Cd Length: 200  Bit Score: 182.05  E-value: 1.54e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 422 QASSVEETSASMEQLAATVQQNAANMEQTQQLVGETSLAVHQGGETVTHAVSTMDDIREASKRIEDITRVIESIAFQTNI 501
Cdd:cd11386     3 LSASIEEVAASADQVAETSQQAAELAEKGREAAEDAINQMNQIDESVDEAVSAVEELEESSAEIGEIVEVIDDIAEQTNL 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 502 LALNAAVEAARAGEHGKGFAVVAQEVRALAGRSANAVKEIEQLIGDTLRKVSEGHALSEKTRLAMDDIIIHIDNISQLVT 581
Cdd:cd11386    83 LALNAAIEAARAGEAGRGFAVVADEVRKLAEESAEAAKEIEELIEEIQEQTEEAVEAMEETSEEVEEGVELVEETGRAFE 162

                         170       180       190
                  ....*....|....*....|....*....|..
gi 2728967322 582 EINHASREQSAGIGQVNLAMTHIGEASHINAD 613
Cdd:cd11386   163 EIVASVEEVADGIQEISAATQEQSASTQEIAA 194
MCPsignal pfam00015
Methyl-accepting chemotaxis protein (MCP) signalling domain; This domain is thought to ...
 463-604 1.65e-43

Methyl-accepting chemotaxis protein (MCP) signalling domain; This domain is thought to transduce the signal to CheA since it is highly conserved in very diverse MCPs.


Pssm-ID: 333767 [Multi-domain]  Cd Length: 172  Bit Score: 153.74  E-value: 1.65e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 463 QGGETVTHAVSTMDDIREASKRIEDITRVIESIAFQTNILALNAAVEAARAGEHGKGFAVVAQEVRALAGRSANAVKEIE 542
Cdd:pfam00015  13 DGGKEVANVVGQMEQIAQSSKKISDIISVIDEIAFQTNLLALNAAIEAARAGEQGRGFAVVADEVRKLAERSAQAAKEIE 92

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2728967322 543 QLIG--------------DTLRKVSEGHALSEKTRLAMDDIIIHIDNISQLVTEINHASREQSAGIGQVNLAMTHI 604
Cdd:pfam00015  93 ALIIeiqkqtndstasieSTRQRVEVGSTIVESTGEALKEIVDAVAEIADIVQEIAAASDEQSAGIDQVNQAVARM 168
PDC2_MCP_like cd12912
second PDC (PhoQ/DcuS/CitA) domain of methyl-accepting chemotaxis proteins and similar domains; ...
 219-306 5.27e-09

second PDC (PhoQ/DcuS/CitA) domain of methyl-accepting chemotaxis proteins and similar domains; Members of this subfamily display varying domain architectures but all contain double PDC (PhoQ/DcuS/CitA) sensor domains. This model represents the second PDC domain of Methyl-accepting chemotaxis proteins (MCPs), Histidine kinases (HKs), and other similar domains. Many members contain both HAMP (HK, Adenylyl cyclase, MCP, and Phosphatase) and MCP domains, which are signalling domains that interact with protein partners to relay a signal. MCPs are part of a transmembrane protein complex that controls bacterial chemotaxis. HK receptors are part of two-component systems (TCS) in bacteria that play a critical role for sensing and adapting to environmental changes. Typically, HK receptors contain an extracellular sensing domain flanked by two transmembrane helices, an intracellular dimerization histidine phosphorylation domain (DHp), and a C-terminal kinase domain, with many variations on this theme. In the case of HKs, signals detected by the sensor domain are transmitted through DHp to the kinase domain, resulting in the phosphorylation of a conserved histidine residue in DHp; phosphotransfer to a conserved aspartate in its cognate response regulator (RR) follows, which leads to the activation of genes for downstream cellular responses.


Pssm-ID: 350337 [Multi-domain]  Cd Length: 92  Bit Score: 53.54  E-value: 5.27e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 219 EKILNRRLGESGHFFVLDRSngktrGQYLFHAGEE------GQLPKWDDATQQQLLGDKPGTLErVSDDGRTLKMAYTPL 292
Cdd:cd12912     4 EIISSIKIGETGYAFLVDKD-----GTIIAHPDKElvgkkiSDDEAAEEELAKKMLAGKSGSVE-YTFNGEKKYVAYAPI 77

                          90
                  ....*....|....
gi 2728967322 293 QGWNWTIVGEVDKS 306
Cdd:cd12912    78 PGTGWSLVVVVPES 91
 
Name Accession Description Interval E-value
Tar COG0840
Methyl-accepting chemotaxis protein (MCP) [Signal transduction mechanisms];
299-641 1.28e-84

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


Pssm-ID: 440602 [Multi-domain]  Cd Length: 533  Bit Score: 275.36  E-value: 1.28e-84
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 299 IVGEVDKSVLLSSVTAMRDRFLLAGVVLSILFAGLFVVLIRRVLTRPLRNVIHLARQYAAGDLRSSLPVTRHDEVGQLID 378
Cdd:COG0840   163 LAALLEAAALALAAAALALALLAAALLALVALAIILALLLSRSITRPLRELLEVLERIAEGDLTVRIDVDSKDEIGQLAD 242

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 379 AINGIGGGLQKIVLQVREAAGEIHLGTNALAADTGEISEQINKQASSVEETSASMEQLAATVQQNAANMEQTQQLVGETS 458
Cdd:COG0840   243 AFNRMIENLRELVGQVRESAEQVASASEELAASAEELAAGAEEQAASLEETAAAMEELSATVQEVAENAQQAAELAEEAS 322

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 459 LAVHQGGETVTHAVSTMDDIR--------------EASKRIEDITRVIESIAFQTNILALNAAVEAARAGEHGKGFAVVA 524
Cdd:COG0840   323 ELAEEGGEVVEEAVEGIEEIResveetaetieelgESSQEIGEIVDVIDDIAEQTNLLALNAAIEAARAGEAGRGFAVVA 402

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 525 QEVRALAGRSANAVKEIEQLIGD--------------TLRKVSEGHALSEKTRLAMDDIIIHIDNISQLVTEINHASREQ 590
Cdd:COG0840   403 DEVRKLAERSAEATKEIEELIEEiqseteeaveameeGSEEVEEGVELVEEAGEALEEIVEAVEEVSDLIQEIAAASEEQ 482

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2728967322 591 SAGIGQVNLAMTHIGEASHINADRISRSEQTAQTLREKGSHLAQLVSLFQL 641
Cdd:COG0840   483 SAGTEEVNQAIEQIAAAAQENAASVEEVAAAAEELAELAEELQELVSRFKL 533
Cache_3-Cache_2 pfam17201
Cache 3/Cache 2 fusion domain; The Cache_3-Cache_2 domain likely originated as a fusion of ...
 34-317 2.52e-78

Cache 3/Cache 2 fusion domain; The Cache_3-Cache_2 domain likely originated as a fusion of sCache_3 and sCache_2 domains.


Pssm-ID: 465378 [Multi-domain]  Cd Length: 298  Bit Score: 251.11  E-value: 2.52e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322  34 SQKASQQLEALAVEDLHNQSTGMVDMVQMFNTSLSEEVESYTRLFTTFLPQPLNSDPSQPQTINGLSVPLLKGGDTGL-- 111
Cdd:pfam17201   1 SRSAKGEVRALAESDLEEQVQDLADMLETQDESLRESVDSDLNVFRKLLPGSWRAVNQFTVDVGGVSLPVLYLGGTWLgq 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 112 ----HENNTLSDDFLNRTGAISTLFVRSGNDFVRVATSLRKENGERAMGTVLDASSPAFAAVNKGEVYRGLALLFGKRYI 187
Cdd:pfam17201  81 nrdpNKNFPLVDEFTELTGGTATVFQRMNDDLLRVATSVKKEDGSRAIGTYIPASSPVYKAVLAGETYVGRAKVFGKWYV 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 188 TQYQPVKNAEGQVIAIVFVGVDITHSWNVMREKILNRRLGESGHFFVLDrSNGKTRGQYLFHAGEEGQ---LPKWDDATQ 264
Cdd:pfam17201 161 TAYEPIRDADGKVIGILYVGVPQDEALASLRKAIKKVKIGKTGYLYVLD-GKGDQKGKFIVHPTLEGKnilDAKDADGEP 239

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2728967322 265 --QQLLGDKPGTLE---RVSDDGRTLKMAYTPLQGWNWTIVGEVDKSVLLSSVTAMRD 317
Cdd:pfam17201 240 fvKKLLQKKVGSLEypwKADAAGRDKLAAFTYFEPWDWVIVASVYEDEFLAATNRLLN 297
PRK15048 PRK15048
methyl-accepting chemotaxis protein II; Provisional
 320-641 4.62e-78

methyl-accepting chemotaxis protein II; Provisional


Pssm-ID: 185008 [Multi-domain]  Cd Length: 553  Bit Score: 258.40  E-value: 4.62e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 320 LLAGVVLSILFAGLFVvlIRRVLTRPLRNVIHLARQYAAGDLRSSLPVTRHDEVGQLIDAINGIGGGLQKIVLQVREAAG 399
Cdd:PRK15048  196 VIALVVVLILLVAWYG--IRRMLLTPLAKIIAHIREIAGGNLANTLTIDGRSEMGDLAQSVSHMQRSLTDTVTHVREGSD 273

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 400 EIHLGTNALAADTGEISEQINKQASSVEETSASMEQLAATVQQNAANMEQTQQLVGETSLAVHQGGETVTHAVSTMDDIR 479
Cdd:PRK15048  274 AIYAGTREIAAGNTDLSSRTEQQASALEETAASMEQLTATVKQNADNARQASQLAQSASDTAQHGGKVVDGVVKTMHEIA 353

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 480 EASKRIEDITRVIESIAFQTNILALNAAVEAARAGEHGKGFAVVAQEVRALAGRSANAVKEIEQLIGDTLRKVSEGHALS 559
Cdd:PRK15048  354 DSSKKIADIISVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVAGEVRNLASRSAQAAKEIKALIEDSVSRVDTGSVLV 433

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 560 EKTRLAMDDIIIHIDNISQLVTEINHASREQSAGIGQVNLAMTHIGEASHINADRISRSEQTAQTLREKGSHLAQLVSLF 639
Cdd:PRK15048  434 ESAGETMNNIVNAVTRVTDIMGEIASASDEQSRGIDQVALAVSEMDRVTQQNASLVQESAAAAAALEEQASRLTQAVSAF 513


                  ..
gi 2728967322 640 QL 641
Cdd:PRK15048  514 RL 515
PRK15041 PRK15041
methyl-accepting chemotaxis protein;
324-642 6.39e-72

methyl-accepting chemotaxis protein;


Pssm-ID: 185001 [Multi-domain]  Cd Length: 554  Bit Score: 242.17  E-value: 6.39e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 324 VVLSILFAGLFVVL-----IRRVLTRPLRNVIHLARQYAAGDLRSSLPVTRHDEVGQLIDAINGIGGGLQKIVLQVREAA 398
Cdd:PRK15041  195 ILVGVMIVVLAVIFavwfgIKASLVAPMNRLIDSIRHIAGGDLVKPIEVDGSNEMGQLAESLRHMQGELMRTVGDVRNGA 274

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 399 GEIHLGTNALAADTGEISEQINKQASSVEETSASMEQLAATVQQNAANMEQTQQLVGETSLAVHQGGETVTHAVSTMDDI 478
Cdd:PRK15041  275 NAIYSGASEIATGNNDLSSRTEQQAASLEETAASMEQLTATVKQNAENARQASHLALSASETAQRGGKVVDNVVQTMRDI 354

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 479 REASKRIEDITRVIESIAFQTNILALNAAVEAARAGEHGKGFAVVAQEVRALAGRSANAVKEIEQLIGDTLRKVSEGHAL 558
Cdd:PRK15041  355 STSSQKIADIISVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVAGEVRNLAQRSAQAAREIKSLIEDSVGKVDVGSTL 434

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 559 SEKTRLAMDDIIIHIDNISQLVTEINHASREQSAGIGQVNLAMTHIGEASHINADRISRSEQTAQTLREKGSHLAQLVSL 638
Cdd:PRK15041  435 VESAGETMAEIVSAVTRVTDIMGEIASASDEQSRGIDQVGLAVAEMDRVTQQNAALVEESAAAAAALEEQASRLTEAVAV 514


                  ....
gi 2728967322 639 FQLK 642
Cdd:PRK15041  515 FRIQ 518
PRK09793 PRK09793
methyl-accepting chemotaxis protein IV;
324-642 4.41e-66

methyl-accepting chemotaxis protein IV;


Pssm-ID: 182079 [Multi-domain]  Cd Length: 533  Bit Score: 226.11  E-value: 4.41e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 324 VVLSILFAGLFVVLIRRVLTRPLRNVIHLARQYAAGDLRSSLPVTRHDEVGQLIDAINGIGGGLQKIVLQVREAAGEIHL 403
Cdd:PRK09793  196 IIVAAIYISSALWWTRKMIVQPLAIIGSHFDSIAAGNLARPIAVYGRNEITAIFASLKTMQQALRGTVSDVRKGSQEMHI 275

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 404 GTNALAADTGEISEQINKQASSVEETSASMEQLAATVQQNAANMEQTQQLVGETSLAVHQGGETVTHAVSTMDDIREASK 483
Cdd:PRK09793  276 GIAEIVAGNNDLSSRTEQQAASLAQTAASMEQLTATVGQNADNARQASELAKNAATTAQAGGVQVSTMTHTMQEIATSSQ 355

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 484 RIEDITRVIESIAFQTNILALNAAVEAARAGEHGKGFAVVAQEVRALAGRSANAVKEIEQLIGDTLRKVSEGHALSEKTR 563
Cdd:PRK09793  356 KIGDIISVIDGIAFQTNILALNAAVEAARAGEQGRGFAVVAGEVRNLASRSAQAAKEIKGLIEESVNRVQQGSKLVNNAA 435

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2728967322 564 LAMDDIIIHIDNISQLVTEINHASREQSAGIGQVNLAMTHIGEASHINADRISRSEQTAQTLREKGSHLAQLVSLFQLK 642
Cdd:PRK09793  436 ATMTDIVSSVTRVNDIMGEIASASEEQRRGIEQVAQAVSQMDQVTQQNASLVEEAAVATEQLANQADHLSSRVAVFTLE 514
MA smart00283
Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Thought to undergo ...
 393-640 7.96e-65

Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Thought to undergo reversible methylation in response to attractants or repellants during bacterial chemotaxis.


Pssm-ID: 214599 [Multi-domain]  Cd Length: 262  Bit Score: 214.07  E-value: 7.96e-65
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322  393 QVREAAGEIHLGTNALAADTGEISEQINKQASSVEETSASMEQLAATVQQNAANMEQTQQLVGETSLAVHQGGETVTHAV 472
Cdd:smart00283   1 DVSEAVEEIAAGAEEQAEELEELAERMEELSASIEEVAANADEIAATAQSAAEAAEEGREAVEDAITAMDQIREVVEEAV 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322  473 STMDDIREASKRIEDITRVIESIAFQTNILALNAAVEAARAGEHGKGFAVVAQEVRALAGRSANAVKEIEQLIGD----- 547
Cdd:smart00283  81 SAVEELEESSDEIGEIVSVIDDIADQTNLLALNAAIEAARAGEAGRGFAVVADEVRKLAERSAESAKEIESLIKEiqeet 160

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322  548 ---------TLRKVSEGHALSEKTRLAMDDIIIHIDNISQLVTEINHASREQSAGIGQVNLAMTHIGEASHINADRISRS 618
Cdd:smart00283 161 neavaameeSSSEVEEGVELVEETGDALEEIVDSVEEIADLVQEIAAATDEQAAGSEEVNAAIDEIAQVTQETAAMSEEI 240

                          250       260
                   ....*....|....*....|..
gi 2728967322  619 EQTAQTLREKGSHLAQLVSLFQ 640
Cdd:smart00283 241 SAAAEELSGLAEELDELVERFK 262
MCP_signal cd11386
Methyl-accepting chemotaxis protein (MCP), signaling domain; Methyl-accepting chemotaxis ...
 422-613 1.54e-53

Methyl-accepting chemotaxis protein (MCP), signaling domain; Methyl-accepting chemotaxis proteins (MCPs or chemotaxis receptors) are an integral part of the transmembrane protein complex that controls bacterial chemotaxis, together with the histidine kinase CheA, the receptor-coupling protein CheW, receptor-modification enzymes, and localized phosphatases. MCPs contain a four helix trans membrane region, an N-terminal periplasmic ligand binding domain, and a C-terminal HAMP domain followed by a cytoplasmic signaling domain. This C-terminal signaling domain dimerizes into a four-helix bundle and interacts with CheA through the adaptor protein CheW.


Pssm-ID: 206779 [Multi-domain]  Cd Length: 200  Bit Score: 182.05  E-value: 1.54e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 422 QASSVEETSASMEQLAATVQQNAANMEQTQQLVGETSLAVHQGGETVTHAVSTMDDIREASKRIEDITRVIESIAFQTNI 501
Cdd:cd11386     3 LSASIEEVAASADQVAETSQQAAELAEKGREAAEDAINQMNQIDESVDEAVSAVEELEESSAEIGEIVEVIDDIAEQTNL 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 502 LALNAAVEAARAGEHGKGFAVVAQEVRALAGRSANAVKEIEQLIGDTLRKVSEGHALSEKTRLAMDDIIIHIDNISQLVT 581
Cdd:cd11386    83 LALNAAIEAARAGEAGRGFAVVADEVRKLAEESAEAAKEIEELIEEIQEQTEEAVEAMEETSEEVEEGVELVEETGRAFE 162

                         170       180       190
                  ....*....|....*....|....*....|..
gi 2728967322 582 EINHASREQSAGIGQVNLAMTHIGEASHINAD 613
Cdd:cd11386   163 EIVASVEEVADGIQEISAATQEQSASTQEIAA 194
MCPsignal pfam00015
Methyl-accepting chemotaxis protein (MCP) signalling domain; This domain is thought to ...
 463-604 1.65e-43

Methyl-accepting chemotaxis protein (MCP) signalling domain; This domain is thought to transduce the signal to CheA since it is highly conserved in very diverse MCPs.


Pssm-ID: 333767 [Multi-domain]  Cd Length: 172  Bit Score: 153.74  E-value: 1.65e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 463 QGGETVTHAVSTMDDIREASKRIEDITRVIESIAFQTNILALNAAVEAARAGEHGKGFAVVAQEVRALAGRSANAVKEIE 542
Cdd:pfam00015  13 DGGKEVANVVGQMEQIAQSSKKISDIISVIDEIAFQTNLLALNAAIEAARAGEQGRGFAVVADEVRKLAERSAQAAKEIE 92

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2728967322 543 QLIG--------------DTLRKVSEGHALSEKTRLAMDDIIIHIDNISQLVTEINHASREQSAGIGQVNLAMTHI 604
Cdd:pfam00015  93 ALIIeiqkqtndstasieSTRQRVEVGSTIVESTGEALKEIVDAVAEIADIVQEIAAASDEQSAGIDQVNQAVARM 168
sCache_3_3 pfam17202
Single cache domain 3;
111-211 9.98e-31

Single cache domain 3;


Pssm-ID: 465379 [Multi-domain]  Cd Length: 104  Bit Score: 115.72  E-value: 9.98e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 111 LHENNTLSDDFLNRTGAISTLFVrsgnDFVRVATSLRKENGERAMGTVLDASsPAFAAVNKGEVYRGLALLFGKRYITQY 190
Cdd:pfam17202   3 INGNFELVDKIKELTGGTATIFL----GDTRIATTVKDEDGKRAVGTKLSDE-VAEAVLKKGETYRGRADILGKWYYTAY 77

                          90       100
                  ....*....|....*....|.
gi 2728967322 191 QPVKNAEGQVIAIVFVGVDIT 211
Cdd:pfam17202  78 EPLKDADGKVIGMLFVGIPEE 98
NtrY COG5000
Signal transduction histidine kinase NtrY involved in nitrogen fixation and metabolism ...
 320-496 1.14e-10

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: 63.83  E-value: 1.14e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 320 LLAGVVLSILFAGLFVVLIRRVLTRPLRNVIHLARQYAAGDLRSSLPVTRHDEVGQLIDAINGIGGGLQKIVLQVREAAG 399
Cdd:COG5000    11 LLLIALLLLLLALWLALLLARRLTRPLRRLAEATRAVAAGDLSVRLPVTGDDEIGELARAFNRMTDQLKEQREELEERRR 90

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 400 EI-----HLGTNALAADTGEISEQINKQASSVEETSAS------------MEQLAATVQQNAANMEQTQ---QLVGETSL 459
Cdd:COG5000    91 YLetileNLPAGVIVLDADGRITLANPAAERLLGIPLEeligkpleellpELDLAELLREALERGWQEEielTRDGRRTL 170

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 2728967322 460 AVHQGGETVTHAVSTMDDIRE--ASKRIEDITRVIESIA 496
Cdd:COG5000   171 LVRASPLRDDGYVIVFDDITEllRAERLAAWGELARRIA 209
YesM COG2972
Sensor histidine kinase YesM [Signal transduction mechanisms];
259-396 2.17e-09

Sensor histidine kinase YesM [Signal transduction mechanisms];


Pssm-ID: 442211 [Multi-domain]  Cd Length: 445  Bit Score: 60.03  E-value: 2.17e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 259 WDDATQQQLLGDKPGTLERVSDDGRTLKMAYTPLQGWNWTIVGEVDKSVLLSSVTAMRdRFLLAGVVLSILFAGLFVVLI 338
Cdd:COG2972    99 LLLLLALILLLALLLLLSILLLILGLLLIILLLLSLLGWTLVSLIPKSELFRGLFSLR-RLILLIILLLLLLALLLSYLL 177

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2728967322 339 RRVLTRPLRNVIHLARQYAAGDLrSSLPVTRHDEVGQLIDAINGIGGGLQKIVLQVRE 396
Cdd:COG2972   178 SRSITRPIKRLKKAMKKVEKGDL-VRLEVSGNDEIGILARSFNEMVERIKELIEEVYE 234
dCache_1 pfam02743
Cache domain; Double cache domain 1 covers the last three strands from the membrane distal ...
 111-302 3.87e-09

Cache domain; Double cache domain 1 covers the last three strands from the membrane distal PAS-like domain, the first two strands of the membrane proximal domain, and the connecting elements between the two domains. This domain when present in chemoreceptors recognize several signals such as proteinogenic amino acids, GABA, Histamine and polyamines, decanoic acid, Autoinducer-2, purine derivatives, quaternary amines, citrate and taurine, among others. When associated with histidine kinases, it recognizes C3/C4-dicarboxylic acids, Spermine, guanosine and Autoinducer-2 (Mantilla et al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1 https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 460673 [Multi-domain]  Cd Length: 237  Bit Score: 57.73  E-value: 3.87e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 111 LHENNTLSDDFLNRTGAISTLFVRSGNDFVRVAtslrkeNGERAMGTVLDAS-SPAFAAVNKGE-----VYRGLALLF-- 182
Cdd:pfam02743  50 AEEELAKLESLLRSNPGISSIYLVDADGRVLAS------SDESPSYPGLDVSeRPWYKEALKGGggiiwVFSSPYPSSes 123

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 183 GKRYITQYQPVKNAEGQVIAIVFVGVDIthswNVMREKILNRRLGESGHFFVLDRsngktRGQYLFHAGEE---GQLPKW 259
Cdd:pfam02743 124 GEPVLTIARPIYDDDGEVIGVLVADLDL----DTLQELLSQIKLGEGGYVFIVDS-----DGRILAHPLGKnlrSLLAPF 194

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 2728967322 260 DDATQQQLLGDKPGTLERVSDDGRTLKMAYTPLQGWNWTIVGE 302
Cdd:pfam02743 195 LGKSLADALPGSGITEIAVDLDGEDYLVAYAPIPGTGWTLVVV 237
PDC2_MCP_like cd12912
second PDC (PhoQ/DcuS/CitA) domain of methyl-accepting chemotaxis proteins and similar domains; ...
 219-306 5.27e-09

second PDC (PhoQ/DcuS/CitA) domain of methyl-accepting chemotaxis proteins and similar domains; Members of this subfamily display varying domain architectures but all contain double PDC (PhoQ/DcuS/CitA) sensor domains. This model represents the second PDC domain of Methyl-accepting chemotaxis proteins (MCPs), Histidine kinases (HKs), and other similar domains. Many members contain both HAMP (HK, Adenylyl cyclase, MCP, and Phosphatase) and MCP domains, which are signalling domains that interact with protein partners to relay a signal. MCPs are part of a transmembrane protein complex that controls bacterial chemotaxis. HK receptors are part of two-component systems (TCS) in bacteria that play a critical role for sensing and adapting to environmental changes. Typically, HK receptors contain an extracellular sensing domain flanked by two transmembrane helices, an intracellular dimerization histidine phosphorylation domain (DHp), and a C-terminal kinase domain, with many variations on this theme. In the case of HKs, signals detected by the sensor domain are transmitted through DHp to the kinase domain, resulting in the phosphorylation of a conserved histidine residue in DHp; phosphotransfer to a conserved aspartate in its cognate response regulator (RR) follows, which leads to the activation of genes for downstream cellular responses.


Pssm-ID: 350337 [Multi-domain]  Cd Length: 92  Bit Score: 53.54  E-value: 5.27e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 219 EKILNRRLGESGHFFVLDRSngktrGQYLFHAGEE------GQLPKWDDATQQQLLGDKPGTLErVSDDGRTLKMAYTPL 292
Cdd:cd12912     4 EIISSIKIGETGYAFLVDKD-----GTIIAHPDKElvgkkiSDDEAAEEELAKKMLAGKSGSVE-YTFNGEKKYVAYAPI 77

                          90
                  ....*....|....
gi 2728967322 293 QGWNWTIVGEVDKS 306
Cdd:cd12912    78 PGTGWSLVVVVPES 91
HAMP cd06225
Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain; ...
 343-381 1.01e-08

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: 51.29  E-value: 1.01e-08
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 2728967322 343 TRPLRNVIHLARQYAAGDLRSSLPVTRHDEVGQLIDAIN 381
Cdd:cd06225     1 TRPLRRLTEAARRIAEGDLDVRVPVRSKDEIGELARAFN 39
PDC2_HK_sensor cd18774
second PDC (PhoQ/DcuS/CitA) domain of methyl-accepting chemotaxis proteins, ...
 217-305 1.80e-08

second PDC (PhoQ/DcuS/CitA) domain of methyl-accepting chemotaxis proteins, diguanylate-cyclase and similar domains; Histidine kinase (HK) receptors are part of two-component systems (TCS) in bacteria that play a critical role for sensing and adapting to environmental changes. Typically, HK receptors contain an extracellular sensing domain flanked by two transmembrane helices, an intracellular dimerization histidine phosphorylation domain (DHp), and a C-terminal kinase domain, with many variations on this theme. HK receptors in this family contain double PDC (PhoQ/DcuS/CitA) sensor domains. Signals detected by the sensor domain are transmitted through DHp to the kinase domain, resulting in the phosphorylation of a conserved histidine residue in DHp; phosphotransfer to a conserved aspartate in its cognate response regulator (RR) follows, which leads to the activation of genes for downstream cellular responses. The HK family includes not just histidine kinase receptors but also sensors for chemotaxis proteins and diguanylate cyclase receptors, implying a combinatorial molecular evolution.


Pssm-ID: 350342 [Multi-domain]  Cd Length: 89  Bit Score: 52.06  E-value: 1.80e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 217 MREKILNRRLGESGHFFVLDRSngktrGQYLFHAGEE----GQLPKWDDATQQQLLGDKPGTLERVSDDGRTLKMAYTPL 292
Cdd:cd18774     2 LSDLLSSIKLGETGYAFLVDSD-----GTILAHPPKElvgkGKSLDDLALLAALLLAGESGTFEYTSDDGVERLVAYRPV 76

                          90
                  ....*....|...
gi 2728967322 293 QGWNWTIVGEVDK 305
Cdd:cd18774    77 PGTPWVVVVGVPE 89
COG4564 COG4564
Signal transduction histidine kinase [Signal transduction mechanisms];
286-623 2.06e-08

Signal transduction histidine kinase [Signal transduction mechanisms];


Pssm-ID: 443621 [Multi-domain]  Cd Length: 510  Bit Score: 56.96  E-value: 2.06e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 286 KMAY-TPLQGWNWTIVGEVDKSVLLSSVTAMRDRFLLAGVVLSILFAGLFVVLIRRVLTRPLRNVIHLARQYAAGDLRSS 364
Cdd:COG4564   143 KLSYvKKFPPWDWVIGTGVYLDDIEAAFAAAALELLLLLALLLALALALLLLVLAALAGLLLASALEGELNLAGALAALL 222

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 365 LPVTrhDEVGQLIDAINGIGGGLQKIVLQVREAAGEIHLGTNALAADTGEISEQINKQASSVEETSASMEQLAATVQQNA 444
Cdd:COG4564   223 LAAA--AELLAALLLIGAAAGALLALAEAVAAVLAEALAAAAAAAAASAAASSAALAAAAAEAEAALAASEASAAAALAA 300

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 445 ANMEQTQQLVGETSLAVHQGGETVTHAVSTMDDIREASKRIEDITRVIESIAFQTNILALNAAVEAARAGEHGKGFAVVA 524
Cdd:COG4564   301 AAAAAAAAAAAAAAAEAAAAAAAAAAAAAAAAASVADVAALAAAAAAAAAIAALAAAAAAAAAAAAAAAAIAAAAAAAAA 380

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 525 QEVRALAGRSANAVKEIEQLIGDTLRKVSEGHALSEKTRLAMDDIIIHIDNISQLVTEINHASREQSAGIGQVNLAMTHI 604
Cdd:COG4564   381 AAAAAAAAAAEAAAAAAAAATAAAALEAVAAAAAAAAAAAAAEAAAAEVEAAAAITAIILEAAAAAAAAIEAEEAAAVAA 460

                         330
                  ....*....|....*....
gi 2728967322 605 GEASHINADRISRSEQTAQ 623
Cdd:COG4564   461 AAALAAEAAAAAAAAAEAA 479
HAMP pfam00672
HAMP domain;
337-381 4.16e-08

HAMP domain;


Pssm-ID: 459898 [Multi-domain]  Cd Length: 53  Bit Score: 49.93  E-value: 4.16e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 2728967322 337 LIRRVLTRPLRNVIHLARQYAAGDLRSSLPVTRHDEVGQLIDAIN 381
Cdd:pfam00672   1 LLARRILRPLRRLAEAARRIASGDLDVRLPVSGRDEIGELARAFN 45
NarQ COG3850
Signal transduction histidine kinase NarQ, nitrate/nitrite-specific [Signal transduction ...
 241-641 1.49e-07

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


Pssm-ID: 443059 [Multi-domain]  Cd Length: 448  Bit Score: 54.12  E-value: 1.49e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 241 KTRGQYLFHAGEEGQLPKWDDATQQQLLGDKPGTLERVSDDGRTLKMAYTPLQGWNWTIVGEVDKSVLLSSVTAMRDRFL 320
Cdd:COG3850    41 TLLRLLSLLASAGLLAALLAALLLLLSLGLLALLLALLLLLLLLLLAALLSLLLLLLLLLLLLLLLLLLLLAAAINRKLA 120

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 321 LAGVVLSILFAGLFVVLIRRVLTRPLRNVIHLARQYAAGDLRSSLPVTRHDEVGQLIDAINGIGGGLQKIVLQVREAAGE 400
Cdd:COG3850   121 LLRLLLALLLALLLAYLLRRRIVRPLRRLTQAAERIARGDFDARVPVSGRDELGTLARAFNRMADELQELYAELEEEEEL 200

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 401 IHLGTNALAADTGEISEQINKQASSVEETSASMEQLAATVQQNAANMEQTQQLVGETSLAVHQGGETVTHAVSTMDDIRE 480
Cdd:COG3850   201 EAELELLALLDELLLLAALLLLLALLLALLLAALLAALLLLLLLQDALAESELLALNILAGLLELLLALLLLLLASALLL 280

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 481 ASKRIEDITRVIESIAFQTNILALNAAVEAARAGEHGKGFAVVAQEVRALAGRSANAVKEIEQLIGDTLRKVSEGHALSE 560
Cdd:COG3850   281 LELELLALLLELVELLALAAAEEALLLLVELAALLLLLLLQAIANASLLLIALASVVAALLELASILALQAALEAAAAGA 360

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 561 KTRLAMDDIIIHIDNISQLVTEINHASREQSAGIGQVNLAMTHIGEASHINADRISRSEQTAQTLREKGSHLAQLVSLFQ 640
Cdd:COG3850   361 ALAAAAAAAGLARALAQAGADAAEALGLLAEASEGAAGQGAGLVDVEGGVAGEGGLVVLIVSIIAGGEAIARGEALAARG 440


                  .
gi 2728967322 641 L 641
Cdd:COG3850   441 L 441
HAMP smart00304
HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain;
340-391 7.60e-07

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


Pssm-ID: 197640 [Multi-domain]  Cd Length: 53  Bit Score: 46.47  E-value: 7.60e-07
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 2728967322  340 RVLTRPLRNVIHLARQYAAGDLRSSLPVTRHDEVGQLIDAINGIGGGLQKIV 391
Cdd:smart00304   1 RRLLRPLRRLAEAAQRIADGDLTVRLPVDGRDEIGELARAFNEMADRLEETI 52
HAMP COG2770
HAMP domain [Signal transduction mechanisms];
307-594 2.59e-05

HAMP domain [Signal transduction mechanisms];


Pssm-ID: 442051 [Multi-domain]  Cd Length: 631  Bit Score: 47.42  E-value: 2.59e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 307 VLLSSVTAMRDRFLLAGVVLSILFAGLFVVLIRRVLTRPLRNVIHLARQYAAGDLRSSLPVTRHDEVGQLIDAINGIGGG 386
Cdd:COG2770   201 VVLLEAALAALLLLLLLALLALLLALLLALLLARRITRPLRRLAEAARRIAAGDLDVRIPVSRKDEIGELARAFNRMADS 280

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 387 LQKIVLQVREAAGEIHLGTNALAADTGEISEQINKQASSVEETSASMEQLAATVQQNAANMEQTQQLVGETSLAVHQGGE 466
Cdd:COG2770   281 LRESIEEAEEEEELAEAELARLLEALLELLLALLLLLLALLLLAAAALLLELLLLLLLALLLLLLLAADLLLALALAALL 360

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 467 TVTHAVSTMDDIREASKRIEDITRVIESIAFQTNILALNAAVEAARAGEHGKGFAVVAQEVRALAGRSANAVKEIEQLIG 546
Cdd:COG2770   361 LLLALELLLEAELLVLLALEALALEAELAAVLALLAALAAALLLLELALEELVLALLALALLALAAAAAAAEAAAAALEL 440

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*...
gi 2728967322 547 DTLRKVSEGHALSEKTRLAMDDIIIHIDNISQLVTEINHASREQSAGI 594
Cdd:COG2770   441 AAAAIAAAAAAEAEGGLAELEAEELVAAAEALLLLAALLLLAALGALE 488
MA smart00283
Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Thought to undergo ...
 371-452 1.00e-04

Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Thought to undergo reversible methylation in response to attractants or repellants during bacterial chemotaxis.


Pssm-ID: 214599 [Multi-domain]  Cd Length: 262  Bit Score: 44.58  E-value: 1.00e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322  371 DEVGQLIDAINGIGGGLQKIVLQVREAAGEIhlgtnalaadtGEISEQINKQASSVEETSASMEQLAATVQQNAANMEQT 450
Cdd:smart00283 172 SEVEEGVELVEETGDALEEIVDSVEEIADLV-----------QEIAAATDEQAAGSEEVNAAIDEIAQVTQETAAMSEEI 240


                   ..
gi 2728967322  451 QQ 452
Cdd:smart00283 241 SA 242
COG4192 COG4192
Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal ...
 320-376 1.28e-03

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


Pssm-ID: 443346 [Multi-domain]  Cd Length: 640  Bit Score: 41.98  E-value: 1.28e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2728967322 320 LLAGVVLSILFAGLFVVL-IRRVLTRPLRNVIHLARQYAAGDLRSSLPVTRHDEVGQL 376
Cdd:COG4192   328 LLAIALLSLLLAVLINYFyVRRRLVKRLNALSDAMAAIAAGDLDVPIPVDGNDEIGRI 385
MCP_signal cd11386
Methyl-accepting chemotaxis protein (MCP), signaling domain; Methyl-accepting chemotaxis ...
 372-451 2.78e-03

Methyl-accepting chemotaxis protein (MCP), signaling domain; Methyl-accepting chemotaxis proteins (MCPs or chemotaxis receptors) are an integral part of the transmembrane protein complex that controls bacterial chemotaxis, together with the histidine kinase CheA, the receptor-coupling protein CheW, receptor-modification enzymes, and localized phosphatases. MCPs contain a four helix trans membrane region, an N-terminal periplasmic ligand binding domain, and a C-terminal HAMP domain followed by a cytoplasmic signaling domain. This C-terminal signaling domain dimerizes into a four-helix bundle and interacts with CheA through the adaptor protein CheW.


Pssm-ID: 206779 [Multi-domain]  Cd Length: 200  Bit Score: 39.53  E-value: 2.78e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 372 EVGQLIDAINGiggGLQKIVLQVREAAGEIHLGTnALAADTG----EISEQINKQASSVEETSASMEQLAATVQQNAANM 447
Cdd:cd11386   121 EIEELIEEIQE---QTEEAVEAMEETSEEVEEGV-ELVEETGrafeEIVASVEEVADGIQEISAATQEQSASTQEIAAAV 196


                  ....
gi 2728967322 448 EQTQ 451
Cdd:cd11386   197 EEIA 200
sCache_3_2 pfam17203
Single cache domain 3; This domain is associated to sensor histidine kinases and recognizes ...
 164-212 3.61e-03

Single cache domain 3; This domain is associated to sensor histidine kinases and recognizes citrate and TCA cycle intermediates, Ag(II), Zn(II), Mg(II) (Matilla et al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 435783 [Multi-domain]  Cd Length: 140  Bit Score: 38.16  E-value: 3.61e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 2728967322 164 PAFAAVNKGEVYRGLALLFGKRYITQYQPVKNAEGQVIAIVFVGVDITH 212
Cdd:pfam17203  82 ATAPALTAGRSYTGTVTGTLGPSLDAKLPIFDADGRVIGIVSVGVKQDS 130
PRK15347 PRK15347
two component system sensor kinase;
324-425 4.01e-03

two component system sensor kinase;


Pssm-ID: 237951 [Multi-domain]  Cd Length: 921  Bit Score: 40.40  E-value: 4.01e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2728967322 324 VVLSILFAGLFVVLIRRVLTRPLRNVIHLARQYAAGDLRSSLPVTRHDEVGQLIDAINGIGGGLQKivlQVREAAGEIHL 403
Cdd:PRK15347  303 LLILVLLTSVLFLLLRRYLAKPLWRFVDIINKTGPAALEPRLPENRLDELGSIAKAYNQLLDTLNE---QYDTLENKVAE 379

                          90       100
                  ....*....|....*....|..
gi 2728967322 404 GTNALaADTGEISEQINKQASS 425
Cdd:PRK15347  380 RTQAL-AEAKQRAEQANKRKSE 400
 
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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