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Conserved domains on  [gi|2294038560|ref|WP_259225509|]
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MULTISPECIES: GyrI-like domain-containing protein [Raoultella]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 10007405)

AraC family transcriptional regulator containing an AraC family helix-turn-helix (HTH) DNA-binding domain, may regulate the expression of genes with diverse biological functions including metabolism, stress response, and virulence

CATH:  1.10.10.10
Gene Ontology:  GO:0043565|GO:0003677|GO:0006355|GO:0003700
PubMed:  9409145|33837749|12596232|10473770|15808743|11282467

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SbmC COG3449
DNA gyrase inhibitor GyrI/SbmC [Replication, recombination and repair];
4-296 4.82e-41

DNA gyrase inhibitor GyrI/SbmC [Replication, recombination and repair];


:

Pssm-ID: 442672 [Multi-domain]  Cd Length: 286  Bit Score: 143.84  E-value: 4.82e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560   4 DYRAQVFKAIDYISQNLCFNPTLEEIASAVALSSFHFHRIFKAEVGETIAGFTRRLRMEKAAMWLIESpRRDITGLALRV 83
Cdd:COG3449    10 DQRRRILLVLIALHDDLDLLLLALLLAFAFHFFFFHRRRRFRALIGRRARLLLRRRLLAALALLLLSS-SAIIAAAAAAS 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560  84 GFSSSQNFAKAFRQHFSVSPGEYRRLHAASVKSKPGNvtgeksAYSQTEAMKVvradpdflaaGVLSLPARRVAYMRRFG 163
Cdd:COG3449    89 GYSSSASFRRFFRAFGGSSRSRRRRAKAKLLALPPLD------PPRLEPMMDV----------EIKELPPRRVAYLRHRG 152

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560 164 PYgkETCWLTHHDLAASF-PCGTPRQPAGMVCIYWDAPEVTLGSRCRTDVCIELSEGERPGRGVAVQTIAGGSYAVCKFA 242
Cdd:COG3449   153 PY--EEIGEAFERLIAWAkARGLLPPDSRTIGIYYDDPDITPPEKLRYDACVTVPEDVALPGGVEVKTIPGGRYAVLRHK 230

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2294038560 243 VFGERLDAAWEIAFA-WIKARGLMKGDLPCYEKYYNETDVTLD-YYVFDIFIPVKK 296
Cdd:COG3449   231 GPYEDLGAAWDWLYGeWLPASGYELRDRPCFEIYLNDPRETPEgELITDIYLPLKP 286
 
Name Accession Description Interval E-value
SbmC COG3449
DNA gyrase inhibitor GyrI/SbmC [Replication, recombination and repair];
4-296 4.82e-41

DNA gyrase inhibitor GyrI/SbmC [Replication, recombination and repair];


Pssm-ID: 442672 [Multi-domain]  Cd Length: 286  Bit Score: 143.84  E-value: 4.82e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560   4 DYRAQVFKAIDYISQNLCFNPTLEEIASAVALSSFHFHRIFKAEVGETIAGFTRRLRMEKAAMWLIESpRRDITGLALRV 83
Cdd:COG3449    10 DQRRRILLVLIALHDDLDLLLLALLLAFAFHFFFFHRRRRFRALIGRRARLLLRRRLLAALALLLLSS-SAIIAAAAAAS 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560  84 GFSSSQNFAKAFRQHFSVSPGEYRRLHAASVKSKPGNvtgeksAYSQTEAMKVvradpdflaaGVLSLPARRVAYMRRFG 163
Cdd:COG3449    89 GYSSSASFRRFFRAFGGSSRSRRRRAKAKLLALPPLD------PPRLEPMMDV----------EIKELPPRRVAYLRHRG 152

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560 164 PYgkETCWLTHHDLAASF-PCGTPRQPAGMVCIYWDAPEVTLGSRCRTDVCIELSEGERPGRGVAVQTIAGGSYAVCKFA 242
Cdd:COG3449   153 PY--EEIGEAFERLIAWAkARGLLPPDSRTIGIYYDDPDITPPEKLRYDACVTVPEDVALPGGVEVKTIPGGRYAVLRHK 230

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2294038560 243 VFGERLDAAWEIAFA-WIKARGLMKGDLPCYEKYYNETDVTLD-YYVFDIFIPVKK 296
Cdd:COG3449   231 GPYEDLGAAWDWLYGeWLPASGYELRDRPCFEIYLNDPRETPEgELITDIYLPLKP 286
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
23-107 1.70e-26

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 99.55  E-value: 1.70e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560   23 NPTLEEIASAVALSSFHFHRIFKAEVGETIAGFTRRLRMEKAAMWLIESPRRdITGLALRVGFSSSQNFAKAFRQHFSVS 102
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLS-VTEIALRVGFSSQSYFSRAFKKLFGVT 79


                   ....*
gi 2294038560  103 PGEYR 107
Cdd:smart00342  80 PSEYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
29-108 9.65e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 86.87  E-value: 9.65e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560  29 IASAVALSSFHFHRIFKAEVGETIAGFTRRLRMEKAAMWLIESPRRDITGLALRVGFSSSQNFAKAFRQHFSVSPGEYRR 108
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 7-111 4.49e-14

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 71.22  E-value: 4.49e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560   7 AQVFKAIDYISQNL-CFNPTLEEIASAVALSSFHFHRIFkAEVGETIAGFTRRLRMEKAAMWLIESPRRD-ITGLALRVG 84
Cdd:PRK09685  197 RQFQKVVALIDQSIqEEILRPEWIAGELGISVRSLYRLF-AEQGLVVAQYIRNRRLDRCADDLRPAADDEkITSIAYKWG 275

                          90       100
                  ....*....|....*....|....*..
gi 2294038560  85 FSSSQNFAKAFRQHFSVSPGEYRRLHA 111
Cdd:PRK09685  276 FSDSSHFSTAFKQRFGVSPGEYRRKFR 302
 
Name Accession Description Interval E-value
SbmC COG3449
DNA gyrase inhibitor GyrI/SbmC [Replication, recombination and repair];
4-296 4.82e-41

DNA gyrase inhibitor GyrI/SbmC [Replication, recombination and repair];


Pssm-ID: 442672 [Multi-domain]  Cd Length: 286  Bit Score: 143.84  E-value: 4.82e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560   4 DYRAQVFKAIDYISQNLCFNPTLEEIASAVALSSFHFHRIFKAEVGETIAGFTRRLRMEKAAMWLIESpRRDITGLALRV 83
Cdd:COG3449    10 DQRRRILLVLIALHDDLDLLLLALLLAFAFHFFFFHRRRRFRALIGRRARLLLRRRLLAALALLLLSS-SAIIAAAAAAS 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560  84 GFSSSQNFAKAFRQHFSVSPGEYRRLHAASVKSKPGNvtgeksAYSQTEAMKVvradpdflaaGVLSLPARRVAYMRRFG 163
Cdd:COG3449    89 GYSSSASFRRFFRAFGGSSRSRRRRAKAKLLALPPLD------PPRLEPMMDV----------EIKELPPRRVAYLRHRG 152

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560 164 PYgkETCWLTHHDLAASF-PCGTPRQPAGMVCIYWDAPEVTLGSRCRTDVCIELSEGERPGRGVAVQTIAGGSYAVCKFA 242
Cdd:COG3449   153 PY--EEIGEAFERLIAWAkARGLLPPDSRTIGIYYDDPDITPPEKLRYDACVTVPEDVALPGGVEVKTIPGGRYAVLRHK 230

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2294038560 243 VFGERLDAAWEIAFA-WIKARGLMKGDLPCYEKYYNETDVTLD-YYVFDIFIPVKK 296
Cdd:COG3449   231 GPYEDLGAAWDWLYGeWLPASGYELRDRPCFEIYLNDPRETPEgELITDIYLPLKP 286
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
23-107 1.70e-26

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 99.55  E-value: 1.70e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560   23 NPTLEEIASAVALSSFHFHRIFKAEVGETIAGFTRRLRMEKAAMWLIESPRRdITGLALRVGFSSSQNFAKAFRQHFSVS 102
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLS-VTEIALRVGFSSQSYFSRAFKKLFGVT 79


                   ....*
gi 2294038560  103 PGEYR 107
Cdd:smart00342  80 PSEYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
25-113 4.62e-25

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 101.01  E-value: 4.62e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560  25 TLEEIASAVALSSFHFHRIFKAEVGETIAGFTRRLRMEKAAMWLIESpRRDITGLALRVGFSSSQNFAKAFRQHFSVSPG 104
Cdd:COG2207   170 TLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAET-DLSISEIAYELGFSSQSHFSRAFKKRFGVTPS 248


                  ....*....
gi 2294038560 105 EYRRLHAAS 113
Cdd:COG2207   249 EYRKRLRAR 257
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 11-113 4.28e-24

Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH domain [Transcription];


Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 99.46  E-value: 4.28e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560  11 KAIDYISQNLCFNPTLEEIASAVALSSFHFHRIFKAEVGETIAGFTRRLRMEKAAmWLIESPRRDITGLALRVGFSSSQN 90
Cdd:COG4977   214 RAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERAR-RLLETTDLSIEEIAAACGFGSASH 292

                          90       100
                  ....*....|....*....|...
gi 2294038560  91 FAKAFRQHFSVSPGEYRRLHAAS 113
Cdd:COG4977   293 FRRAFRRRFGVSPSAYRRRFRAR 315
AraC_E_bind smart00871
Bacterial transcription activator, effector binding domain; This domain is found in the ...
 151-295 3.75e-22

Bacterial transcription activator, effector binding domain; This domain is found in the probable effector binding domain of a number of different bacterial transcription activators.and is also present in some DNA gyrase inhibitors. The absence of a HTH motif in the DNA gyrase inhibitors is thought to indicate the fact that these do not bind DNA.


Pssm-ID: 214874 [Multi-domain]  Cd Length: 158  Bit Score: 90.61  E-value: 3.75e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560  151 LPARRVAYMRRFGPYGKETC---------WLTHHDLAASFPCGTPrqpagmVCIYWDAPEVTLGSRCRTDVCIELSEGER 221
Cdd:smart00871   7 LPAFKVAGLRHRGPNEDEKIpelwqrliqWAKELGLLPVGNSGEP------YGVYYDDPDDTPDGEFRYDAGVEVSDEVE 80

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2294038560  222 PGRGVAVQTIAGGSYAVCKFAV-FGERLDAAWEIAFAWIKARGL--MKGDLPCYEKYYNET-DVTLDYYVFDIFIPVK 295
Cdd:smart00871  81 APEGVETKTIPAGKYAVFTHKGgSYDEIQEAWEAIYGEWLPNSGyeLRDAGPDFEVYLNDPpDTDPEELVTEIYIPVK 158
HTH_18 pfam12833
Helix-turn-helix domain;
29-108 9.65e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 86.87  E-value: 9.65e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560  29 IASAVALSSFHFHRIFKAEVGETIAGFTRRLRMEKAAMWLIESPRRDITGLALRVGFSSSQNFAKAFRQHFSVSPGEYRR 108
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
GyrI-like pfam06445
GyrI-like small molecule binding domain; This family contains the small molecule binding ...
 151-294 6.92e-18

GyrI-like small molecule binding domain; This family contains the small molecule binding domain of a number of different bacterial transcription activators. This family also contains DNA gyrase inhibitors. The GyrI superfamily contains a diad of the SHS2 module, adapted for small-molecule binding. The GyrI superfamily includes a family of secreted forms that is found only in animals and the bacterial pathogen Leptospira.


Pssm-ID: 428947  Cd Length: 153  Bit Score: 78.99  E-value: 6.92e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560 151 LPARRVAYMRRFGPYGKETC---------WLTHHDLaasfpcgtPRQPAGMVCIYWDAPEVTLGSRCRTDVCIELSEGER 221
Cdd:pfam06445   7 LPAFRVAGLRHRGPYNEEGIgalweelcaWASENGL--------SPAPSPLIGVSYDDPEVTEDEELRYDAGVAVPIPVE 78

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2294038560 222 PGRGVAVQTIAGGSYAVCKFAVFGERLDAAWE-IAFAWIKARGLMKGDLPCYEKYYNET-DVTLDYYVFDIFIPV 294
Cdd:pfam06445  79 GPEGVEELELPGGEYAVFRHKGPYDDLQETYAkIYGEWLPESGYERRDGPSFEIYLNDPrEVPEEELKTEIYIPV 153
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 7-112 1.30e-17

Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), contains Zn-binding and two AraC-type DNA-binding domains [Replication, recombination and repair];


Pssm-ID: 441772 [Multi-domain]  Cd Length: 358  Bit Score: 82.02  E-value: 1.30e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560   7 AQVFKAIDYISQNLCFNPTLEEIASAVALSSFHFHRIFKAEVGETIAGFTRRLRMEKAAMwLIESPRRdITGLALRVGFS 86
Cdd:COG2169    84 DLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQ-LLQTGLS-VTDAAYAAGFG 161

                          90       100
                  ....*....|....*....|....*.
gi 2294038560  87 SSQNFAKAFRQHFSVSPGEYRRLHAA 112
Cdd:COG2169   162 SLSRFYEAFKKLLGMTPSAYRRGGAG 187
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 7-111 4.49e-14

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 71.22  E-value: 4.49e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560   7 AQVFKAIDYISQNL-CFNPTLEEIASAVALSSFHFHRIFkAEVGETIAGFTRRLRMEKAAMWLIESPRRD-ITGLALRVG 84
Cdd:PRK09685  197 RQFQKVVALIDQSIqEEILRPEWIAGELGISVRSLYRLF-AEQGLVVAQYIRNRRLDRCADDLRPAADDEkITSIAYKWG 275

                          90       100
                  ....*....|....*....|....*..
gi 2294038560  85 FSSSQNFAKAFRQHFSVSPGEYRRLHA 111
Cdd:PRK09685  276 FSDSSHFSTAFKQRFGVSPGEYRRKFR 302
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
13-120 3.01e-13

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 65.51  E-value: 3.01e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560  13 IDYISQNLCFNPTLEEIASAVALSSFHFHRIFKAEVGETIAGFTRRLRMEKAAMWLIESpRRDITGLALRVGFSSSQNFA 92
Cdd:PRK11511   15 LDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKES-NEPILYLAERYGFESQQTLT 93

                          90       100       110
                  ....*....|....*....|....*....|
gi 2294038560  93 KAFRQHFSVSPGEYR--RLHAASVKSKPGN 120
Cdd:PRK11511   94 RTFKNYFDVPPHKYRmtNMQGESRFLHPLN 123
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
13-107 4.19e-13

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 64.56  E-value: 4.19e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560  13 IDYISQNLCFNPTLEEIASAVALSSFHFHRIFKAEVGETIAGFTRRLRMEKAAMWLIESpRRDITGLALRVGFSSSQNFA 92
Cdd:PRK10219   11 IAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTT-ERPIFDIAMDLGYVSQQTFS 89

                          90
                  ....*....|....*
gi 2294038560  93 KAFRQHFSVSPGEYR 107
Cdd:PRK10219   90 RVFRRQFDRTPSDYR 104
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
2-111 7.45e-13

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 67.31  E-value: 7.45e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560   2 PQDYRaqVFKAIDYISQNLCFNPTLEEIASAVALSSFHFHRIFKAEVGETIAGFTRRLRMEKAAmWLIESPRRDITGLAL 81
Cdd:PRK10572  180 PMDPR--VREACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAK-LLLQTTRMPIATIGR 256

                          90       100       110
                  ....*....|....*....|....*....|
gi 2294038560  82 RVGFSSSQNFAKAFRQHFSVSPGEYRRLHA 111
Cdd:PRK10572  257 NVGYDDQLYFSRVFKKCTGASPSEFRARCE 286
ftrA PRK09393
transcriptional activator FtrA; Provisional
 1-108 2.26e-12

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 66.53  E-value: 2.26e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560   1 MPQDYRAQVFKAIDYISQNLCFNPTLEEIASAVALSSFHFHRIFKAEVGETIAGFTRRLRMEKAAMwLIESPRRDITGLA 80
Cdd:PRK09393  212 VASRESDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARD-LLESSALSIDQIA 290

                          90       100
                  ....*....|....*....|....*...
gi 2294038560  81 LRVGFSSSQNFAKAFRQHFSVSPGEYRR 108
Cdd:PRK09393  291 ERAGFGSEESLRHHFRRRAATSPAAYRK 318
PRK10016 PRK10016
DNA gyrase inhibitor SbmC;
153-298 1.14e-09

DNA gyrase inhibitor SbmC;


Pssm-ID: 182195  Cd Length: 156  Bit Score: 56.22  E-value: 1.14e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560 153 ARRVAYMRRFGPYGKE--------TCWLTHHDLaasfpcgtprQPAGMVCIYWDAPEVTLGSRCRTDVCI---------E 215
Cdd:PRK10016   10 KRTIAGFHLVGPWEQTvkqgfeqlMMWVDSHNI----------VPKEWVAVYYDNPDEVPAEKLRCDTVVtvpddfvlpE 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560 216 LSEGerpgrgVAVQTIAGGSYAVCKFAVFGERLDAAWEIAF-AWIKARGLMKGDLPCYEKYYNetDVTLD-YYVFDIFIP 293
Cdd:PRK10016   80 NSEG------VILTEIPGGQYAVAVARVVDDDFAKPWYQFFnSLLQDSAYQMAPKPCFEVYLN--DGAEDgYWDIEMYVP 151


                  ....*
gi 2294038560 294 VKKHH 298
Cdd:PRK10016  152 VQKKH 156
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
25-108 1.51e-09

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 57.71  E-value: 1.51e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560  25 TLEEIASAVALSSFHFHRIFKAEVGETIAGFTRRLRMEKAAMWL-IESprRDITGLALRVGFSSSQNFAKAFRQHFSVSP 103
Cdd:PRK15121   23 SLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALrLTS--RPILDIALQYRFDSQQTFTRAFKKQFAQTP 100


                  ....*
gi 2294038560 104 GEYRR 108
Cdd:PRK15121  101 ALYRR 105
Cass2 pfam14526
Integron-associated effector binding protein; This family contains Cass2 from Vibrio cholerae, ...
 150-294 5.12e-09

Integron-associated effector binding protein; This family contains Cass2 from Vibrio cholerae, an integron-associated protein that has been shown to bind cationic drug compounds with submicromolar affinity. Cass2 has been proposed to be representative of a larger family of independent effector-binding proteins associated with lateral gene transfer within Vibrio and other closely-related species.


Pssm-ID: 434016 [Multi-domain]  Cd Length: 149  Bit Score: 54.28  E-value: 5.12e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560 150 SLPARRVAYMRRFGPYgKETCWLTH-----HDLAASFPCGTPRQPAGMVCIYWDAPEVTLGSRCrtDVCIELSEGERPGR 224
Cdd:pfam14526   4 ELPSFTVAGIRYEGPN-EYEDHNKEigkfwEEFNEDGRLPNIKKDDKSYGIYVDYEDEENEFDY--YAGVEVPSFSELPE 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2294038560 225 GVAVQTIAGGSYAVCKF-AVFGERLDAAWE-IAFAWIKARGLMKGDLPCYEKYYNETDvtlDYYVFDIFIPV 294
Cdd:pfam14526  81 GLVVIEIPGGKYAVFTIeGDFPDAIAEAWTrIYGWLLPNSGYERAGGPDFEVYKENGD---ENMKIELYIPV 149
BltR2 COG4978
GyrI-like small molecule binding domain [Signal transduction mechanisms];
148-284 5.32e-08

GyrI-like small molecule binding domain [Signal transduction mechanisms];


Pssm-ID: 444003  Cd Length: 144  Bit Score: 51.16  E-value: 5.32e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560 148 VLSLPARRVAYMRRFGP-----------YGKETCWLTHHDLAasfPCGTPrqpagmVCIYWDAPEvtlgSRCRTDVCIEL 216
Cdd:COG4978     3 VKELPAQPVASIRATVPmdelgeligeaFGELFAYLAENGIE---PAGPP------FAIYHDTDE----DDVDVEVGVPV 69

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560 217 SEGERPGRGVAVQTIAGGSYAVCKFAvfG--ERLDAAWEIAFAWIKARGLmKGDLPCYEKYYNETDVTLD 284
Cdd:COG4978    70 AGPLPGTGDIKVGTLPAGKAATATHR--GpyDTLDEAYEALLAWIEENGL-EVAGPPREVYLTDPGNEPD 136
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
7-115 1.78e-07

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 51.60  E-value: 1.78e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560   7 AQVFKAIDYISQNLCFNPTLEEIASAVALSSFHFHRIFKAEVGETIAGFTRRLRMEKAAMWLIESPRRdITGLALRVGFS 86
Cdd:PRK13503  171 ARLNQLLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDAS-VTDIAYRCGFG 249

                          90       100
                  ....*....|....*....|....*....
gi 2294038560  87 SSQNFAKAFRQHFSVSPGEYRRLHAASVK 115
Cdd:PRK13503  250 DSNHFSTLFRREFSWSPRDIRQGRDGFLQ 278
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
25-108 3.31e-07

bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 50.95  E-value: 3.31e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560  25 TLEEIASAVALSSFHFHRIFKAEVGETIAGF--TRRLRMEKAAMWLIESprrdITGLALRVGFSSSQNFAKAFRQHFSVS 102
Cdd:PRK15435  101 TLEALADQVAMSPFHLHRLFKATTGMTPKAWqqAWRARRLREALAKGES----VTTSILNAGFPDSSSYYRKADETLGMT 176


                  ....*.
gi 2294038560 103 PGEYRR 108
Cdd:PRK15435  177 AKQFRH 182
PRK10371 PRK10371
transcriptional regulator MelR;
12-109 3.46e-07

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 50.59  E-value: 3.46e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560  12 AIDYISQNLCFNP-------TLEEIASAVALSSFHFHRIFKAEVGETIAGFTRRLRMEKAAMWLIESpRRDITGLALRVG 84
Cdd:PRK10371  189 AQFYVSQMLGFIAenydqalTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDT-DKSILDIALTAG 267

                          90       100
                  ....*....|....*....|....*
gi 2294038560  85 FSSSQNFAKAFRQHFSVSPGEYRRL 109
Cdd:PRK10371  268 FRSSSRFYSTFGKYVGMSPQQYRKL 292
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 16-52 5.12e-07

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 45.61  E-value: 5.12e-07
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 2294038560  16 ISQNLCFNPTLEEIASAVALSSFHFHRIFKAEVGETI 52
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTP 37
YdeE COG3708
Predicted transcriptional regulator YdeE, contains AraC-type DNA-binding domain [Transcription] ...
 212-295 1.67e-06

Predicted transcriptional regulator YdeE, contains AraC-type DNA-binding domain [Transcription];


Pssm-ID: 442922  Cd Length: 157  Bit Score: 46.94  E-value: 1.67e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560 212 VCIELSEGERPGRGVAVQTIAGGSYAVCKF-AVFGERLDAAWE-IAFAWIKARGLMKGDLPCYEKYYNETDVTLDYYVfD 289
Cdd:COG3708    73 AGVEVSSFDEVPEGLETLEIPAGTYAVFTHkGPMPEALQETWQyIYSEWLPSSGYERADGPDFEVYDERDDPSPDSEV-E 151


                  ....*.
gi 2294038560 290 IFIPVK 295
Cdd:COG3708   152 IWIPIK 157
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 68-108 2.23e-04

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 37.90  E-value: 2.23e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 2294038560  68 LIESPRRD--ITGLALRVGFSSSqNFAKAFRQHFSVSPGEYRR 108
Cdd:pfam00165   1 LRENLSTNltIADIADELGFSRS-YFSRLFKKYTGVTPSQYRH 42
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
44-114 4.06e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 41.19  E-value: 4.06e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2294038560  44 FKAEVGETIAGFTRRLRMEKAaMWLIESPRRDITGLALRVGFSSSQNFAKAFRQHFSVSPGEYRRLHAASV 114
Cdd:PRK13502  213 FRAQTGMTINQYLRQVRICHA-QYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMTPSQWRHLSNQSD 282
PRK15340 PRK15340
AraC family transcriptional regulator InvF;
16-103 4.09e-04

AraC family transcriptional regulator InvF;


Pssm-ID: 185240  Cd Length: 216  Bit Score: 40.73  E-value: 4.09e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560  16 ISQNLCFNpTLEEIASAVALSSFHFHRIFKAEVGETIAGFTRRLRMEKAAMWLIESpRRDITGLALRVGFSSSQNFAKAF 95
Cdd:PRK15340  119 LAQSTSGN-TMRMLGEDYGVSYTHFRRLCSRALGGKAKSELRNWRMAQSLLNSVEG-HENITQLAVNHGYSSPSHFSSEI 196


                  ....*...
gi 2294038560  96 RQHFSVSP 103
Cdd:PRK15340  197 KELIGVSP 204
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 16-123 1.37e-03

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 39.52  E-value: 1.37e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560  16 ISQNLCFNPTLEEIASAVALSSFHFHRIFKAEvGETIAGFTRRLRMEKAaMWLIESPRRDITGLALRVGFSSSQNFAKAF 95
Cdd:PRK09978  151 INNNIAHEWTLARIASELLMSPSLLKKKLREE-ETSYSQLLTECRMQRA-LQLIVIHGFSIKRVAVSCGYHSVSYFIYVF 228

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2294038560  96 RQHFSVSPGEY--RRLH------AASVKSKPGNVTG 123
Cdd:PRK09978  229 RNYYGMTPTEYqeRSAQglpnrdSAASIVAQGNFYG 264
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 25-113 2.67e-03

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 38.89  E-value: 2.67e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2294038560  25 TLEEIASAVALSSFHFHRIFKAEvGETIAGFTRRLRMEKAAMwLIESPRRDITGLALRVGFSSSQNFAKAFRQHFSVSPG 104
Cdd:PRK15186  199 ALKDISDSLYMSCSTLKRKLKQE-NTSFSEVYLNARMNKATK-LLRNSEYNITRVAYMCGYDSASYFTCVFKKHFKTTPS 276


                  ....*....
gi 2294038560 105 EYRRLHAAS 113
Cdd:PRK15186  277 EFLAFLSSS 285
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
35-108 5.63e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 37.96  E-value: 5.63e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2294038560  35 LSSFHFHRIFKAEVGETIAGFTRRLRMEKAAMWLIESPRRdITGLALRVGFSSSQNFAKAFRQHFSVSPGEYRR 108
Cdd:PRK13501  204 LVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHR-ISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQ 276
 
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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