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Conserved domains on  [gi|491529535|ref|WP_005387160|]
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MULTISPECIES: helix-turn-helix domain-containing protein [Vibrio]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YdeE COG3708
Predicted transcriptional regulator YdeE, contains AraC-type DNA-binding domain [Transcription] ...
 139-303 6.75e-32

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


:

Pssm-ID: 442922  Cd Length: 157  Bit Score: 116.66  E-value: 6.75e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535 139 IEVRIETKPAFELAGYHEPIHGLFSatpDFQSKVPSLWSRLYSS-----ENLNNSESSYfGVidVTQAYSNNQQLEYWAG 213
Cdd:COG3708    1 MEYRIVEKPAFKLVGLSARTSNSDE---EANEEIPALWQRFLPEglaeiPNLSNPGGLY-GV--CTDYESDEGEFDYLAG 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535 214 YECSPTANAPrstnssnSGLDLLAVPEQTYAVITHIGK-ASELASTLEWFILHWLPYSNYHAIDGYELELYPEGYDvDSE 292
Cdd:COG3708   75 VEVSSFDEVP-------EGLETLEIPAGTYAVFTHKGPmPEALQETWQYIYSEWLPSSGYERADGPDFEVYDERDD-PSP 146

                        170
                 ....*....|.
gi 491529535 293 QAQMQYWIPVE 303
Cdd:COG3708  147 DSEVEIWIPIK 157
GlxA super family cl34854
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 13-113 1.09e-25

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


The actual alignment was detected with superfamily member COG4977:

Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 104.08  E-value: 1.09e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  13 RIQSVLDYIHTNLDSTLSVDEISKASCWSRWQLQRVFQQHTGVSVAHYIRELKLSlAAERLIHTSDRSLD-IAIEMGFTS 91
Cdd:COG4977  211 RLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLE-RARRLLETTDLSIEeIAAACGFGS 289

                         90       100
                 ....*....|....*....|..
gi 491529535  92 EHAFSRAFRNMFSKSPREYRKT 113
Cdd:COG4977  290 ASHFRRAFRRRFGVSPSAYRRR 311
 
Name Accession Description Interval E-value
YdeE COG3708
Predicted transcriptional regulator YdeE, contains AraC-type DNA-binding domain [Transcription] ...
 139-303 6.75e-32

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


Pssm-ID: 442922  Cd Length: 157  Bit Score: 116.66  E-value: 6.75e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535 139 IEVRIETKPAFELAGYHEPIHGLFSatpDFQSKVPSLWSRLYSS-----ENLNNSESSYfGVidVTQAYSNNQQLEYWAG 213
Cdd:COG3708    1 MEYRIVEKPAFKLVGLSARTSNSDE---EANEEIPALWQRFLPEglaeiPNLSNPGGLY-GV--CTDYESDEGEFDYLAG 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535 214 YECSPTANAPrstnssnSGLDLLAVPEQTYAVITHIGK-ASELASTLEWFILHWLPYSNYHAIDGYELELYPEGYDvDSE 292
Cdd:COG3708   75 VEVSSFDEVP-------EGLETLEIPAGTYAVFTHKGPmPEALQETWQYIYSEWLPSSGYERADGPDFEVYDERDD-PSP 146

                        170
                 ....*....|.
gi 491529535 293 QAQMQYWIPVE 303
Cdd:COG3708  147 DSEVEIWIPIK 157
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 13-113 1.09e-25

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: 104.08  E-value: 1.09e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  13 RIQSVLDYIHTNLDSTLSVDEISKASCWSRWQLQRVFQQHTGVSVAHYIRELKLSlAAERLIHTSDRSLD-IAIEMGFTS 91
Cdd:COG4977  211 RLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLE-RARRLLETTDLSIEeIAAACGFGS 289

                         90       100
                 ....*....|....*....|..
gi 491529535  92 EHAFSRAFRNMFSKSPREYRKT 113
Cdd:COG4977  290 ASHFRRAFRRRFGVSPSAYRRR 311
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
14-113 2.08e-25

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 98.07  E-value: 2.08e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  14 IQSVLDYIHTNLDSTLSVDEISKASCWSRWQLQRVFQQHTGVSVAHYIRELKLSLAAERLIHTSDRSLDIAIEMGFTSEH 93
Cdd:PRK10219   7 IQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQ 86

                         90       100
                 ....*....|....*....|
gi 491529535  94 AFSRAFRNMFSKSPREYRKT 113
Cdd:PRK10219  87 TFSRVFRRQFDRTPSDYRHR 106
HTH_18 pfam12833
Helix-turn-helix domain;
34-112 4.23e-23

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 90.73  E-value: 4.23e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535   34 ISKASCWSRWQLQRVFQQHTGVSVAHYIRELKLSLAAERLIHTSDRSL-DIAIEMGFTSEHAFSRAFRNMFSKSPREYRK 112
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDTGLSVaEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
AraC_E_bind smart00871
Bacterial transcription activator, effector binding domain; This domain is found in the ...
 140-303 4.23e-23

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: 93.31  E-value: 4.23e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535   140 EVRIETKPAFELAGYHEPihglfsaTPDFQSKVPSLWSRLYS-----SENLNNSESSYFGVIDVTQAYSNNQQLEYWAGY 214
Cdd:smart00871   1 EVRIVELPAFKVAGLRHR-------GPNEDEKIPELWQRLIQwakelGLLPVGNSGEPYGVYYDDPDDTPDGEFRYDAGV 73

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535   215 ECSPTANAPRstnssnsGLDLLAVPEQTYAVITHIGK-ASELASTLEWFILHWLPYSNY-HAIDGYELELYPEGY-DVDS 291
Cdd:smart00871  74 EVSDEVEAPE-------GVETKTIPAGKYAVFTHKGGsYDEIQEAWEAIYGEWLPNSGYeLRDAGPDFEVYLNDPpDTDP 146

                          170
                   ....*....|..
gi 491529535   292 EQAQMQYWIPVE 303
Cdd:smart00871 147 EELVTEIYIPVK 158
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
29-111 1.79e-22

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 89.15  E-value: 1.79e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535    29 LSVDEISKASCWSRWQLQRVFQQHTGVSVAHYIRELKLSLAAERLIHTSDRSLDIAIEMGFTSEHAFSRAFRNMFSKSPR 108
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ...
gi 491529535   109 EYR 111
Cdd:smart00342  82 EYR 84
Cass2 pfam14526
Integron-associated effector binding protein; This family contains Cass2 from Vibrio cholerae, ...
 142-302 4.23e-19

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: 82.40  E-value: 4.23e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  142 RIETKPAFELAGYHepIHGLFSATpDFQSKVPSLWSRLYSSENLNN--SESSYFGVIDVTQaySNNQQLEYWAGYECSPT 219
Cdd:pfam14526   1 EIVELPSFTVAGIR--YEGPNEYE-DHNKEIGKFWEEFNEDGRLPNikKDDKSYGIYVDYE--DEENEFDYYAGVEVPSF 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  220 ANAPRstnssnsGLDLLAVPEQTYAVITHIGKASE-LASTLEWFILHWLPYSNYHAIDGYELELYPEGYDvdsEQAQMQY 298
Cdd:pfam14526  76 SELPE-------GLVVIEIPGGKYAVFTIEGDFPDaIAEAWTRIYGWLLPNSGYERAGGPDFEVYKENGD---ENMKIEL 145


                  ....
gi 491529535  299 WIPV 302
Cdd:pfam14526 146 YIPV 149
 
Name Accession Description Interval E-value
YdeE COG3708
Predicted transcriptional regulator YdeE, contains AraC-type DNA-binding domain [Transcription] ...
 139-303 6.75e-32

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


Pssm-ID: 442922  Cd Length: 157  Bit Score: 116.66  E-value: 6.75e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535 139 IEVRIETKPAFELAGYHEPIHGLFSatpDFQSKVPSLWSRLYSS-----ENLNNSESSYfGVidVTQAYSNNQQLEYWAG 213
Cdd:COG3708    1 MEYRIVEKPAFKLVGLSARTSNSDE---EANEEIPALWQRFLPEglaeiPNLSNPGGLY-GV--CTDYESDEGEFDYLAG 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535 214 YECSPTANAPrstnssnSGLDLLAVPEQTYAVITHIGK-ASELASTLEWFILHWLPYSNYHAIDGYELELYPEGYDvDSE 292
Cdd:COG3708   75 VEVSSFDEVP-------EGLETLEIPAGTYAVFTHKGPmPEALQETWQYIYSEWLPSSGYERADGPDFEVYDERDD-PSP 146

                        170
                 ....*....|.
gi 491529535 293 QAQMQYWIPVE 303
Cdd:COG3708  147 DSEVEIWIPIK 157
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 13-113 1.09e-25

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: 104.08  E-value: 1.09e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  13 RIQSVLDYIHTNLDSTLSVDEISKASCWSRWQLQRVFQQHTGVSVAHYIRELKLSlAAERLIHTSDRSLD-IAIEMGFTS 91
Cdd:COG4977  211 RLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLE-RARRLLETTDLSIEeIAAACGFGS 289

                         90       100
                 ....*....|....*....|..
gi 491529535  92 EHAFSRAFRNMFSKSPREYRKT 113
Cdd:COG4977  290 ASHFRRAFRRRFGVSPSAYRRR 311
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
14-113 2.08e-25

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 98.07  E-value: 2.08e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  14 IQSVLDYIHTNLDSTLSVDEISKASCWSRWQLQRVFQQHTGVSVAHYIRELKLSLAAERLIHTSDRSLDIAIEMGFTSEH 93
Cdd:PRK10219   7 IQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQ 86

                         90       100
                 ....*....|....*....|
gi 491529535  94 AFSRAFRNMFSKSPREYRKT 113
Cdd:PRK10219  87 TFSRVFRRQFDRTPSDYRHR 106
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
25-115 6.00e-24

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 98.31  E-value: 6.00e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  25 LDSTLSVDEISKASCWSRWQLQRVFQQHTGVSVAHYIRELKLSLAAERLIHTSDRSLDIAIEMGFTSEHAFSRAFRNMFS 104
Cdd:COG2207  165 LLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFG 244

                         90
                 ....*....|.
gi 491529535 105 KSPREYRKTQQ 115
Cdd:COG2207  245 VTPSEYRKRLR 255
HTH_18 pfam12833
Helix-turn-helix domain;
34-112 4.23e-23

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 90.73  E-value: 4.23e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535   34 ISKASCWSRWQLQRVFQQHTGVSVAHYIRELKLSLAAERLIHTSDRSL-DIAIEMGFTSEHAFSRAFRNMFSKSPREYRK 112
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDTGLSVaEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
AraC_E_bind smart00871
Bacterial transcription activator, effector binding domain; This domain is found in the ...
 140-303 4.23e-23

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: 93.31  E-value: 4.23e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535   140 EVRIETKPAFELAGYHEPihglfsaTPDFQSKVPSLWSRLYS-----SENLNNSESSYFGVIDVTQAYSNNQQLEYWAGY 214
Cdd:smart00871   1 EVRIVELPAFKVAGLRHR-------GPNEDEKIPELWQRLIQwakelGLLPVGNSGEPYGVYYDDPDDTPDGEFRYDAGV 73

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535   215 ECSPTANAPRstnssnsGLDLLAVPEQTYAVITHIGK-ASELASTLEWFILHWLPYSNY-HAIDGYELELYPEGY-DVDS 291
Cdd:smart00871  74 EVSDEVEAPE-------GVETKTIPAGKYAVFTHKGGsYDEIQEAWEAIYGEWLPNSGYeLRDAGPDFEVYLNDPpDTDP 146

                          170
                   ....*....|..
gi 491529535   292 EQAQMQYWIPVE 303
Cdd:smart00871 147 EELVTEIYIPVK 158
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
29-111 1.79e-22

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 89.15  E-value: 1.79e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535    29 LSVDEISKASCWSRWQLQRVFQQHTGVSVAHYIRELKLSLAAERLIHTSDRSLDIAIEMGFTSEHAFSRAFRNMFSKSPR 108
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ...
gi 491529535   109 EYR 111
Cdd:smart00342  82 EYR 84
SbmC COG3449
DNA gyrase inhibitor GyrI/SbmC [Replication, recombination and repair];
1-304 9.69e-22

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


Pssm-ID: 442672 [Multi-domain]  Cd Length: 286  Bit Score: 93.00  E-value: 9.69e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535   1 MKSSAINPHPINRIQSVLDYIHTNLDSTLSVDEISKASCWSRWQLQRVFQQHTGVSVAHYIRELKLSLAAERLIHTSDRS 80
Cdd:COG3449    2 MKLRTREADQRRRILLVLIALHDDLDLLLLALLLAFAFHFFFFHRRRRFRALIGRRARLLLRRRLLAALALLLLSSSAII 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  81 LDIAIEMGFTSEHAFSRAFRNMFSKSPREYRKtqqlsglRQPLTLRKTPEEEKKHQRFIEVRIETKPAFELAGYHepIHG 160
Cdd:COG3449   82 AAAAAASGYSSSASFRRFFRAFGGSSRSRRRR-------AKAKLLALPPLDPPRLEPMMDVEIKELPPRRVAYLR--HRG 152

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535 161 lfsatpDFQSkVPSLWSRLY---SSENLNNSESSYFGVI----DVTQAysnnQQLEYWAGYECSPTANAPrstnssnSGL 233
Cdd:COG3449  153 ------PYEE-IGEAFERLIawaKARGLLPPDSRTIGIYyddpDITPP----EKLRYDACVTVPEDVALP-------GGV 214

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 491529535 234 DLLAVPEQTYAVITHIGKASELASTLEWFILHWLPYSNYHAIDGYELELYPE-GYDVDSEQAQMQYWIPVEP 304
Cdd:COG3449  215 EVKTIPGGRYAVLRHKGPYEDLGAAWDWLYGEWLPASGYELRDRPCFEIYLNdPRETPEGELITDIYLPLKP 286
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
14-114 3.14e-20

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 84.77  E-value: 3.14e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  14 IQSVLDYIHTNLDSTLSVDEISKASCWSRWQLQRVFQQHTGVSVAHYIRELKLSLAAERLIHTSDRSLDIAIEMGFTSEH 93
Cdd:PRK11511  11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFESQQ 90

                         90       100
                 ....*....|....*....|.
gi 491529535  94 AFSRAFRNMFSKSPREYRKTQ 114
Cdd:PRK11511  91 TLTRTFKNYFDVPPHKYRMTN 111
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
14-125 1.22e-19

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 86.99  E-value: 1.22e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  14 IQSVLDYIHTNLDSTLSVDEISKASCWSRWQLQRVFQQHTGVSVAHYIRELKLSLAAERLIHTSDRSLDIAIEMGFTSEH 93
Cdd:PRK15121   7 IRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFDSQQ 86

                         90       100       110
                 ....*....|....*....|....*....|....
gi 491529535  94 AFSRAFRNMFSKSPREYRKTQQLS--GLRQPLTL 125
Cdd:PRK15121  87 TFTRAFKKQFAQTPALYRRSPEWSafGIRPPIRL 120
Cass2 pfam14526
Integron-associated effector binding protein; This family contains Cass2 from Vibrio cholerae, ...
 142-302 4.23e-19

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: 82.40  E-value: 4.23e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  142 RIETKPAFELAGYHepIHGLFSATpDFQSKVPSLWSRLYSSENLNN--SESSYFGVIDVTQaySNNQQLEYWAGYECSPT 219
Cdd:pfam14526   1 EIVELPSFTVAGIR--YEGPNEYE-DHNKEIGKFWEEFNEDGRLPNikKDDKSYGIYVDYE--DEENEFDYYAGVEVPSF 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  220 ANAPRstnssnsGLDLLAVPEQTYAVITHIGKASE-LASTLEWFILHWLPYSNYHAIDGYELELYPEGYDvdsEQAQMQY 298
Cdd:pfam14526  76 SELPE-------GLVVIEIPGGKYAVFTIEGDFPDaIAEAWTRIYGWLLPNSGYERAGGPDFEVYKENGD---ENMKIEL 145


                  ....
gi 491529535  299 WIPV 302
Cdd:pfam14526 146 YIPV 149
GyrI-like pfam06445
GyrI-like small molecule binding domain; This family contains the small molecule binding ...
 140-302 8.66e-19

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: 81.69  E-value: 8.66e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  140 EVRIETKPAFELAGYHEPihglfsaTPDFQSKVPSLWSRLY---SSENLNNSESSYFGVidvtqaYSNNQQLEywAGYEC 216
Cdd:pfam06445   1 EVEIVELPAFRVAGLRHR-------GPYNEEGIGALWEELCawaSENGLSPAPSPLIGV------SYDDPEVT--EDEEL 65

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  217 SPTANAPRSTNSSNS-GLDLLAVPEQTYAVITHIGKASELASTLEWFILHWLPYSNYHAIDGYELELY-PEGYDVDSEQA 294
Cdd:pfam06445  66 RYDAGVAVPIPVEGPeGVEELELPGGEYAVFRHKGPYDDLQETYAKIYGEWLPESGYERRDGPSFEIYlNDPREVPEEEL 145


                  ....*...
gi 491529535  295 QMQYWIPV 302
Cdd:pfam06445 146 KTEIYIPV 153
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 14-124 3.82e-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: 80.87  E-value: 3.82e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  14 IQSVLDYIHTNLDSTLSVDEISKASCWSRWQLQRVFQQHTGVSVAHYIRELKLSLAAErLIHTSDRSLDIAIEMGFTSEH 93
Cdd:COG2169   86 VARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQ-LLQTGLSVTDAAYAAGFGSLS 164

                         90       100       110
                 ....*....|....*....|....*....|.
gi 491529535  94 AFSRAFRNMFSKSPREYRKTQQLSGLRQPLT 124
Cdd:COG2169  165 RFYEAFKKLLGMTPSAYRRGGAGAAIRFAPT 195
ftrA PRK09393
transcriptional activator FtrA; Provisional
 8-112 4.38e-12

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 65.76  E-value: 4.38e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535   8 PHPINRIQSVLDYIHTNLDSTLSVDEISKASCWSRWQLQRVFQQHTGVSVAHYIRELKLSLAAErLIHTSDRSLD-IAIE 86
Cdd:PRK09393 214 SRESDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARD-LLESSALSIDqIAER 292

                         90       100
                 ....*....|....*....|....*.
gi 491529535  87 MGFTSEHAFSRAFRNMFSKSPREYRK 112
Cdd:PRK09393 293 AGFGSEESLRHHFRRRAATSPAAYRK 318
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
1-112 5.15e-12

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 65.38  E-value: 5.15e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535   1 MKSSAINPHPI--NRIQSVLDYIHTNLDSTLSVDEISKASCWSRWQLQRVFQQHTGVSVAHYiRELKLSLAAERLIHTSD 78
Cdd:PRK10572 170 MEAIPESLHPPmdPRVREACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRW-REDQRISRAKLLLQTTR 248

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 491529535  79 RSL-DIAIEMGFTSEHAFSRAFRNMFSKSPREYRK 112
Cdd:PRK10572 249 MPIaTIGRNVGYDDQLYFSRVFKKCTGASPSEFRA 283
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 7-113 1.79e-10

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 60.82  E-value: 1.79e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535   7 NPHPINRIQSVLDYIHTNLDS-TLSVDEISKASCWSRWQLQRVFQQHtGVSVAHYIRELKLSLAAERLIHTSDR-SL-DI 83
Cdd:PRK09685 192 QPRRERQFQKVVALIDQSIQEeILRPEWIAGELGISVRSLYRLFAEQ-GLVVAQYIRNRRLDRCADDLRPAADDeKItSI 270

                         90       100       110
                 ....*....|....*....|....*....|
gi 491529535  84 AIEMGFTSEHAFSRAFRNMFSKSPREYRKT 113
Cdd:PRK09685 271 AYKWGFSDSSHFSTAFKQRFGVSPGEYRRK 300
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
13-121 2.59e-09

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 56.99  E-value: 2.59e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  13 RIQSVLDYIHTNLDSTLSVDEISKASCWSRWQLQRVFQQHTGVSVAHYIRELKLSLAAERLIHTSDRSLDIAIEMGFTSE 92
Cdd:PRK13503 172 RLNQLLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDS 251

                         90       100
                 ....*....|....*....|....*....
gi 491529535  93 HAFSRAFRNMFSKSPREYRktQQLSGLRQ 121
Cdd:PRK13503 252 NHFSTLFRREFSWSPRDIR--QGRDGFLQ 278
PRK10371 PRK10371
transcriptional regulator MelR;
3-115 3.92e-07

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 50.59  E-value: 3.92e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535   3 SSAINPHPINRIQSVLDYIHTNLDSTLSVDEISKASCWSRWQLQRVFQQHTGVSVAHYIRELKLSlAAERLIHTSDRS-L 81
Cdd:PRK10371 182 KNSVSRHAQFYVSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRIN-HVRALLSDTDKSiL 260

                         90       100       110
                 ....*....|....*....|....*....|....
gi 491529535  82 DIAIEMGFTSEHAFSRAFRNMFSKSPREYRKTQQ 115
Cdd:PRK10371 261 DIALTAGFRSSSRFYSTFGKYVGMSPQQYRKLSQ 294
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
45-112 3.17e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 47.98  E-value: 3.17e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 491529535  45 LQRVFQQHTGVSVAHYIRELKLSlAAERLIHTSDRSL-DIAIEMGFTSEHAFSRAFRNMFSKSPREYRK 112
Cdd:PRK13501 209 LKQLFRQQTGMSISHYLRQIRLC-HAKCLLRGSEHRIsDIAARCGFEDSNYFSAVFTREAGMTPRDYRQ 276
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
10-111 2.86e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 45.09  E-value: 2.86e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  10 PINRIQSVLDYIHTNLDSTL----SVDEISKASCWSRWQLQRVFQQHTGVSVAHYIRELKLSLAAERLIHTSDRSLDIAI 85
Cdd:PRK13500 200 PPTSSETLLDKLITRLAASLkspfALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDIST 279

                         90       100
                 ....*....|....*....|....*.
gi 491529535  86 EMGFTSEHAFSRAFRNMFSKSPREYR 111
Cdd:PRK13500 280 ECGFEDSNYFSVVFTRETGMTPSQWR 305
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
10-111 1.41e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 42.73  E-value: 1.41e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491529535  10 PINRIQSVLDYIHTNLDSTLSVDEISKASCWSRWQLQRV----FQQHTGVSVAHYIRELKLSLAAERLIHTSDRSLDIAI 85
Cdd:PRK13502 170 PATSRETLLDKLITALANSLECPFALDAFCQQEQCSERVlrqqFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISM 249

                         90       100
                 ....*....|....*....|....*.
gi 491529535  86 EMGFTSEHAFSRAFRNMFSKSPREYR 111
Cdd:PRK13502 250 QCGFEDSNYFSVVFTRETGMTPSQWR 275
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 21-62 8.51e-03

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: 33.67  E-value: 8.51e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 491529535   21 IHTNLDSTLSVDEISKASCWSRWQLQRVFQQHTGVSVAHYIR 62
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYRH 42
 
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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