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Conserved domains on  [gi|2113572521|ref|WP_226168307|]
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AraC family transcriptional regulator [Clostridium estertheticum]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 11454549)

AraC family transcriptional regulator controls the expression of genes with diverse biological functions including metabolism, stress response, and virulence

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
AraC_E_bind smart00871
Bacterial transcription activator, effector binding domain; This domain is found in the ...
 134-291 6.32e-28

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: 105.64  E-value: 6.32e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521  134 PEIIIVPSKTIMGIRFETSVANNQSIKQWGIFKKQLTKMKNISANSDRYGFFEGNNNCEIElfnEDSLSTEFIGIEVDKT 213
Cdd:smart00871   2 VRIVELPAFKVAGLRHRGPNEDEKIPELWQRLIQWAKELGLLPVGNSGEPYGVYYDDPDDT---PDGEFRYDAGVEVSDE 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521  214 NFESNNMLIKEFSGGKYAKFIHTGTV-NTLYMTYRYIWGTWFPNSNKQL-DMRDDFECYTERFLGTKNDKSQIDIYFPIV 291
Cdd:smart00871  79 VEAPEGVETKTIPAGKYAVFTHKGGSyDEIQEAWEAIYGEWLPNSGYELrDAGPDFEVYLNDPPDTDPEELVTEIYIPVK 158
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
21-104 3.74e-25

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 95.70  E-value: 3.74e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   21 PITPRNVANVVSYSYYHFHRYFHSMMGETISVYIRFRRLTEAAKALLYTEKKILDIAVSLHFQSHEAFTRAFKNRYGVTP 100
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 2113572521  101 KQYR 104
Cdd:smart00342  81 SEYR 84
 
Name Accession Description Interval E-value
AraC_E_bind smart00871
Bacterial transcription activator, effector binding domain; This domain is found in the ...
 134-291 6.32e-28

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: 105.64  E-value: 6.32e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521  134 PEIIIVPSKTIMGIRFETSVANNQSIKQWGIFKKQLTKMKNISANSDRYGFFEGNNNCEIElfnEDSLSTEFIGIEVDKT 213
Cdd:smart00871   2 VRIVELPAFKVAGLRHRGPNEDEKIPELWQRLIQWAKELGLLPVGNSGEPYGVYYDDPDDT---PDGEFRYDAGVEVSDE 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521  214 NFESNNMLIKEFSGGKYAKFIHTGTV-NTLYMTYRYIWGTWFPNSNKQL-DMRDDFECYTERFLGTKNDKSQIDIYFPIV 291
Cdd:smart00871  79 VEAPEGVETKTIPAGKYAVFTHKGGSyDEIQEAWEAIYGEWLPNSGYELrDAGPDFEVYLNDPPDTDPEELVTEIYIPVK 158
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
21-104 3.74e-25

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 95.70  E-value: 3.74e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   21 PITPRNVANVVSYSYYHFHRYFHSMMGETISVYIRFRRLTEAAKALLYTEKKILDIAVSLHFQSHEAFTRAFKNRYGVTP 100
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 2113572521  101 KQYR 104
Cdd:smart00342  81 SEYR 84
YdeE COG3708
Predicted transcriptional regulator YdeE, contains AraC-type DNA-binding domain [Transcription] ...
 132-291 3.00e-24

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


Pssm-ID: 442922  Cd Length: 157  Bit Score: 95.86  E-value: 3.00e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521 132 LTPEIIIVPSKTIMGIRFETSV---ANNQSI-KQWG-IFKKQLTKMKNISANSDRYGFFegnnnceIELFNEDSLSTEFI 206
Cdd:COG3708     1 MEYRIVEKPAFKLVGLSARTSNsdeEANEEIpALWQrFLPEGLAEIPNLSNPGGLYGVC-------TDYESDEGEFDYLA 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521 207 GIEVDKTNFESNNMLIKEFSGGKYAKFIHTGTV-NTLYMTYRYIWGTWFPNSNKQLDMRDDFECYTERFlgTKNDKSQID 285
Cdd:COG3708    74 GVEVSSFDEVPEGLETLEIPAGTYAVFTHKGPMpEALQETWQYIYSEWLPSSGYERADGPDFEVYDERD--DPSPDSEVE 151


                  ....*.
gi 2113572521 286 IYFPIV 291
Cdd:COG3708   152 IWIPIK 157
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
7-107 9.38e-24

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 97.16  E-value: 9.38e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   7 LEKAIIFIENNLYEPITPRNVANVVSYSYYHFHRYFHSMMGETISVYIRFRRLTEAAKALLYTEKKILDIAVSLHFQSHE 86
Cdd:COG2207   154 LLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQS 233

                          90       100
                  ....*....|....*....|.
gi 2113572521  87 AFTRAFKNRYGVTPKQYRNNR 107
Cdd:COG2207   234 HFSRAFKKRFGVTPSEYRKRL 254
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
1-104 5.08e-23

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 95.85  E-value: 5.08e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   1 MSSKKILEKAIIFIENNLYEPITPRNVANVVSYSYYHFHRYFHSMMGETISVYIRFRRLTEAAKALLYTEKKILDIAVSL 80
Cdd:PRK15121    1 MDQAGIIRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALRLTSRPILDIALQY 80

                          90       100
                  ....*....|....*....|....
gi 2113572521  81 HFQSHEAFTRAFKNRYGVTPKQYR 104
Cdd:PRK15121   81 RFDSQQTFTRAFKKQFAQTPALYR 104
Cass2 pfam14526
Integron-associated effector binding protein; This family contains Cass2 from Vibrio cholerae, ...
 135-290 6.74e-21

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: 86.64  E-value: 6.74e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521 135 EIIIVPSKTIMGIRFETSVANNQSIKQ----WGIFKKQlTKMKNISANSDRYGFFEgNNNCEIELFnedslsTEFIGIEV 210
Cdd:pfam14526   1 EIVELPSFTVAGIRYEGPNEYEDHNKEigkfWEEFNED-GRLPNIKKDDKSYGIYV-DYEDEENEF------DYYAGVEV 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521 211 DKTNFESNNMLIKEFSGGKYAKFIHTGTVNTLYM-TYRYIWGTWFPNSNKQLDMRDDFECYTERFlgtkNDKSQIDIYFP 289
Cdd:pfam14526  73 PSFSELPEGLVVIEIPGGKYAVFTIEGDFPDAIAeAWTRIYGWLLPNSGYERAGGPDFEVYKENG----DENMKIELYIP 148


                  .
gi 2113572521 290 I 290
Cdd:pfam14526 149 V 149
HTH_18 pfam12833
Helix-turn-helix domain;
27-106 2.83e-19

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 79.94  E-value: 2.83e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521  27 VANVVSYSYYHFHRYFHSMMGETISVYIRFRRLTEAAKALLY-TEKKILDIAVSLHFQSHEAFTRAFKNRYGVTPKQYRN 105
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 2113572521 106 N 106
Cdd:pfam12833  81 R 81
viru_reg_Rsp NF033869
AraC family transcriptional regulator Rsp; Rsp (repressor of surface proteins), as described ...
 6-119 2.00e-06

AraC family transcriptional regulator Rsp; Rsp (repressor of surface proteins), as described in Staphylococcus aureus, is a large protein with an AraC-like helix-turn-helix DNA-binding domain. Regulatory targets include the accessory gene regulator (agr) operon, which in turn regulates a large number of virulence factors.


Pssm-ID: 411433 [Multi-domain]  Cd Length: 701  Bit Score: 48.95  E-value: 2.00e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   6 ILEKAIIFIENNLYEPITPRNVANVV----SYSYYHFHRYFHSMMGEtisvYIRFRRLTEAAKALLYTEKKILDIAVSLH 81
Cdd:NF033869  148 VFINCLTFIHDHISSNLSLRDVAQHCniseSYCSNLFVRYLNMNFKD----YFTSLKLCHAIQLLLSTNHSINAISELSG 223

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 2113572521  82 FQSHEAFTRAFKNRYGVTPKQYRN--NRIDTlignMPQLD 119
Cdd:NF033869  224 FSSHTNFTNQFKNYLNFSPKQFRTllSKIDP----LPQIH 259
 
Name Accession Description Interval E-value
AraC_E_bind smart00871
Bacterial transcription activator, effector binding domain; This domain is found in the ...
 134-291 6.32e-28

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: 105.64  E-value: 6.32e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521  134 PEIIIVPSKTIMGIRFETSVANNQSIKQWGIFKKQLTKMKNISANSDRYGFFEGNNNCEIElfnEDSLSTEFIGIEVDKT 213
Cdd:smart00871   2 VRIVELPAFKVAGLRHRGPNEDEKIPELWQRLIQWAKELGLLPVGNSGEPYGVYYDDPDDT---PDGEFRYDAGVEVSDE 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521  214 NFESNNMLIKEFSGGKYAKFIHTGTV-NTLYMTYRYIWGTWFPNSNKQL-DMRDDFECYTERFLGTKNDKSQIDIYFPIV 291
Cdd:smart00871  79 VEAPEGVETKTIPAGKYAVFTHKGGSyDEIQEAWEAIYGEWLPNSGYELrDAGPDFEVYLNDPPDTDPEELVTEIYIPVK 158
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
21-104 3.74e-25

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 95.70  E-value: 3.74e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   21 PITPRNVANVVSYSYYHFHRYFHSMMGETISVYIRFRRLTEAAKALLYTEKKILDIAVSLHFQSHEAFTRAFKNRYGVTP 100
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 2113572521  101 KQYR 104
Cdd:smart00342  81 SEYR 84
YdeE COG3708
Predicted transcriptional regulator YdeE, contains AraC-type DNA-binding domain [Transcription] ...
 132-291 3.00e-24

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


Pssm-ID: 442922  Cd Length: 157  Bit Score: 95.86  E-value: 3.00e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521 132 LTPEIIIVPSKTIMGIRFETSV---ANNQSI-KQWG-IFKKQLTKMKNISANSDRYGFFegnnnceIELFNEDSLSTEFI 206
Cdd:COG3708     1 MEYRIVEKPAFKLVGLSARTSNsdeEANEEIpALWQrFLPEGLAEIPNLSNPGGLYGVC-------TDYESDEGEFDYLA 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521 207 GIEVDKTNFESNNMLIKEFSGGKYAKFIHTGTV-NTLYMTYRYIWGTWFPNSNKQLDMRDDFECYTERFlgTKNDKSQID 285
Cdd:COG3708    74 GVEVSSFDEVPEGLETLEIPAGTYAVFTHKGPMpEALQETWQYIYSEWLPSSGYERADGPDFEVYDERD--DPSPDSEVE 151


                  ....*.
gi 2113572521 286 IYFPIV 291
Cdd:COG3708   152 IWIPIK 157
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
7-107 9.38e-24

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 97.16  E-value: 9.38e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   7 LEKAIIFIENNLYEPITPRNVANVVSYSYYHFHRYFHSMMGETISVYIRFRRLTEAAKALLYTEKKILDIAVSLHFQSHE 86
Cdd:COG2207   154 LLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQS 233

                          90       100
                  ....*....|....*....|.
gi 2113572521  87 AFTRAFKNRYGVTPKQYRNNR 107
Cdd:COG2207   234 HFSRAFKKRFGVTPSEYRKRL 254
SbmC COG3449
DNA gyrase inhibitor GyrI/SbmC [Replication, recombination and repair];
5-290 1.99e-23

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


Pssm-ID: 442672 [Multi-domain]  Cd Length: 286  Bit Score: 96.85  E-value: 1.99e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   5 KILEKAIIFIENNLYEPITPRNVANVVSYSYYHFHRYFHSMMGETISVYIRFRRLTEAAKALLYTEKKILDIAVSLHFQS 84
Cdd:COG3449    13 RRILLVLIALHDDLDLLLLALLLAFAFHFFFFHRRRRFRALIGRRARLLLRRRLLAALALLLLSSSAIIAAAAAASGYSS 92

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521  85 HEAFTRAFKNRYGVTPKQYRNNRIDTLIGNMPQLDANElvhrtskITLTPEIIIVPSKTIMGIRFetsVANNQSIKQ-WG 163
Cdd:COG3449    93 SASFRRFFRAFGGSSRSRRRRAKAKLLALPPLDPPRLE-------PMMDVEIKELPPRRVAYLRH---RGPYEEIGEaFE 162

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521 164 IFKKQLTKMKNISANSDRYGFFEgNNNCEIElfnEDSLSTEfIGIEVDKTNFESNNMLIKEFSGGKYAKFIHTGTVNTLY 243
Cdd:COG3449   163 RLIAWAKARGLLPPDSRTIGIYY-DDPDITP---PEKLRYD-ACVTVPEDVALPGGVEVKTIPGGRYAVLRHKGPYEDLG 237

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*..
gi 2113572521 244 MTYRYIWGTWFPNSNKQLDMRDDFECYTERFLGTKNDKSQIDIYFPI 290
Cdd:COG3449   238 AAWDWLYGEWLPASGYELRDRPCFEIYLNDPRETPEGELITDIYLPL 284
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
1-104 5.08e-23

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 95.85  E-value: 5.08e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   1 MSSKKILEKAIIFIENNLYEPITPRNVANVVSYSYYHFHRYFHSMMGETISVYIRFRRLTEAAKALLYTEKKILDIAVSL 80
Cdd:PRK15121    1 MDQAGIIRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALRLTSRPILDIALQY 80

                          90       100
                  ....*....|....*....|....
gi 2113572521  81 HFQSHEAFTRAFKNRYGVTPKQYR 104
Cdd:PRK15121   81 RFDSQQTFTRAFKKQFAQTPALYR 104
Cass2 pfam14526
Integron-associated effector binding protein; This family contains Cass2 from Vibrio cholerae, ...
 135-290 6.74e-21

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: 86.64  E-value: 6.74e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521 135 EIIIVPSKTIMGIRFETSVANNQSIKQ----WGIFKKQlTKMKNISANSDRYGFFEgNNNCEIELFnedslsTEFIGIEV 210
Cdd:pfam14526   1 EIVELPSFTVAGIRYEGPNEYEDHNKEigkfWEEFNED-GRLPNIKKDDKSYGIYV-DYEDEENEF------DYYAGVEV 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521 211 DKTNFESNNMLIKEFSGGKYAKFIHTGTVNTLYM-TYRYIWGTWFPNSNKQLDMRDDFECYTERFlgtkNDKSQIDIYFP 289
Cdd:pfam14526  73 PSFSELPEGLVVIEIPGGKYAVFTIEGDFPDAIAeAWTRIYGWLLPNSGYERAGGPDFEVYKENG----DENMKIELYIP 148


                  .
gi 2113572521 290 I 290
Cdd:pfam14526 149 V 149
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
1-105 1.40e-20

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 84.59  E-value: 1.40e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   1 MSSKKILEKAIIFIENNLYEPITPRNVANVVSYSYYHFHRYFHSMMGETISVYIRFRRLTEAAKALLYTEKKILDIAVSL 80
Cdd:PRK10219    1 MSHQKIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDL 80

                          90       100
                  ....*....|....*....|....*
gi 2113572521  81 HFQSHEAFTRAFKNRYGVTPKQYRN 105
Cdd:PRK10219   81 GYVSQQTFSRVFRRQFDRTPSDYRH 105
GyrI-like pfam06445
GyrI-like small molecule binding domain; This family contains the small molecule binding ...
 133-290 2.40e-20

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: 85.15  E-value: 2.40e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521 133 TPEIIIVPSKTIMGIRFETSVANNQSIKQWGIFKKQLTKMKNISANSDRYGFFEGNNNCEielfnEDSLSTEFIGIEVDK 212
Cdd:pfam06445   1 EVEIVELPAFRVAGLRHRGPYNEEGIGALWEELCAWASENGLSPAPSPLIGVSYDDPEVT-----EDEELRYDAGVAVPI 75

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2113572521 213 TNFESNNMLIKEFSGGKYAKFIHTGTVNTLYMTYRYIWGTWFPNSNKQLDMRDDFECYTERFLGTKNDKSQIDIYFPI 290
Cdd:pfam06445  76 PVEGPEGVEELELPGGEYAVFRHKGPYDDLQETYAKIYGEWLPESGYERRDGPSFEIYLNDPREVPEEELKTEIYIPV 153
HTH_18 pfam12833
Helix-turn-helix domain;
27-106 2.83e-19

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 79.94  E-value: 2.83e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521  27 VANVVSYSYYHFHRYFHSMMGETISVYIRFRRLTEAAKALLY-TEKKILDIAVSLHFQSHEAFTRAFKNRYGVTPKQYRN 105
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 2113572521 106 N 106
Cdd:pfam12833  81 R 81
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 7-105 8.98e-16

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: 75.96  E-value: 8.98e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   7 LEKAIIFIENNLYEPITPRNVANVVSYSYYHFHRYFHSMMGETISVYIRFRRLtEAAKALL-YTEKKILDIAVSLHFQSH 85
Cdd:COG4977   212 LARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRL-ERARRLLeTTDLSIEEIAAACGFGSA 290

                          90       100
                  ....*....|....*....|
gi 2113572521  86 EAFTRAFKNRYGVTPKQYRN 105
Cdd:COG4977   291 SHFRRAFRRRFGVSPSAYRR 310
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
13-108 2.36e-15

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 70.90  E-value: 2.36e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521  13 FIENNLYEPITPRNVANVVSYSYYHFHRYFHSMMGETISVYIRFRRLTEAAKALLYTEKKILDIAVSLHFQSHEAFTRAF 92
Cdd:PRK11511   17 WIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFESQQTLTRTF 96

                          90
                  ....*....|....*.
gi 2113572521  93 KNRYGVTPKQYRNNRI 108
Cdd:PRK11511   97 KNYFDVPPHKYRMTNM 112
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 8-112 1.72e-13

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: 69.70  E-value: 1.72e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   8 EKAIIFIENNLYEPITPRNVANVVSYSYYHFHRYFHSMMGETISVYIRFRRLtEAAKALLYTEKKILDIAVSLHFQSHEA 87
Cdd:COG2169    87 ARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRL-LRARQLLQTGLSVTDAAYAAGFGSLSR 165

                          90       100
                  ....*....|....*....|....*
gi 2113572521  88 FTRAFKNRYGVTPKQYRNNRIDTLI 112
Cdd:COG2169   166 FYEAFKKLLGMTPSAYRRGGAGAAI 190
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 2-104 1.02e-12

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 66.98  E-value: 1.02e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   2 SSKKILEKAIIFIENNLYEP-ITPRNVANVVSYSYYHFHRYFhSMMGETISVYIRFRRLTEAAKAL--LYTEKKILDIAV 78
Cdd:PRK09685  194 RRERQFQKVVALIDQSIQEEiLRPEWIAGELGISVRSLYRLF-AEQGLVVAQYIRNRRLDRCADDLrpAADDEKITSIAY 272

                          90       100
                  ....*....|....*....|....*.
gi 2113572521  79 SLHFQSHEAFTRAFKNRYGVTPKQYR 104
Cdd:PRK09685  273 KWGFSDSSHFSTAFKQRFGVSPGEYR 298
PRK10371 PRK10371
transcriptional regulator MelR;
13-104 4.84e-10

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 59.06  E-value: 4.84e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521  13 FIENNLYEPITPRNVANVVSYSYYHFHRYFHSMMGETISVYIRFRRLTEAaKALLY-TEKKILDIAVSLHFQSHEAFTRA 91
Cdd:PRK10371  199 FIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHV-RALLSdTDKSILDIALTAGFRSSSRFYST 277

                          90
                  ....*....|...
gi 2113572521  92 FKNRYGVTPKQYR 104
Cdd:PRK10371  278 FGKYVGMSPQQYR 290
ftrA PRK09393
transcriptional activator FtrA; Provisional
 7-104 2.93e-08

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 53.81  E-value: 2.93e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   7 LEKAIIFIENNLYEPITPRNVANVVSYSYYHFHRYFHSMMGETISVYIRFRRLTEAaKALLYTEK-KILDIAVSLHFQSH 85
Cdd:PRK09393  220 LGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARA-RDLLESSAlSIDQIAERAGFGSE 298

                          90
                  ....*....|....*....
gi 2113572521  86 EAFTRAFKNRYGVTPKQYR 104
Cdd:PRK09393  299 ESLRHHFRRRAATSPAAYR 317
viru_reg_Rsp NF033869
AraC family transcriptional regulator Rsp; Rsp (repressor of surface proteins), as described ...
 6-119 2.00e-06

AraC family transcriptional regulator Rsp; Rsp (repressor of surface proteins), as described in Staphylococcus aureus, is a large protein with an AraC-like helix-turn-helix DNA-binding domain. Regulatory targets include the accessory gene regulator (agr) operon, which in turn regulates a large number of virulence factors.


Pssm-ID: 411433 [Multi-domain]  Cd Length: 701  Bit Score: 48.95  E-value: 2.00e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   6 ILEKAIIFIENNLYEPITPRNVANVV----SYSYYHFHRYFHSMMGEtisvYIRFRRLTEAAKALLYTEKKILDIAVSLH 81
Cdd:NF033869  148 VFINCLTFIHDHISSNLSLRDVAQHCniseSYCSNLFVRYLNMNFKD----YFTSLKLCHAIQLLLSTNHSINAISELSG 223

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 2113572521  82 FQSHEAFTRAFKNRYGVTPKQYRN--NRIDTlignMPQLD 119
Cdd:NF033869  224 FSSHTNFTNQFKNYLNFSPKQFRTllSKIDP----LPQIH 259
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
7-111 2.30e-06

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 48.13  E-value: 2.30e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   7 LEKAIIFIENNLYEPITPRNVANVVSYSYYHFHRYFHSMMGETISVYIRFRRLTEAAKALLYTEKKILDIAVSLHFQSHE 86
Cdd:PRK13503  173 LNQLLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSN 252

                          90       100
                  ....*....|....*....|....*
gi 2113572521  87 AFTRAFKNRYGVTPKQYRNNRIDTL 111
Cdd:PRK13503  253 HFSTLFRREFSWSPRDIRQGRDGFL 277
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 69-105 4.98e-06

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: 42.53  E-value: 4.98e-06
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 2113572521  69 TEKKILDIAVSLHF-QSHeaFTRAFKNRYGVTPKQYRN 105
Cdd:pfam00165   7 TNLTIADIADELGFsRSY--FSRLFKKYTGVTPSQYRH 42
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
20-105 7.47e-06

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


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 46.71  E-value: 7.47e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521  20 EPITPRNVANVVSYSYYHFHRYFHSMMGETISVY---IRFRRLTEAakalLYTEKKILDIAVSLHFQSHEAFTRAFKNRY 96
Cdd:PRK15435   98 TPVTLEALADQVAMSPFHLHRLFKATTGMTPKAWqqaWRARRLREA----LAKGESVTTSILNAGFPDSSSYYRKADETL 173


                  ....*....
gi 2113572521  97 GVTPKQYRN 105
Cdd:PRK15435  174 GMTAKQFRH 182
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
2-105 1.66e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 45.48  E-value: 1.66e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   2 SSKKILEKAIIFIENNLYEPITPRNVANVVSYSYYHFHRYFHSMMGETISVYIRFRRLTEAAKALLYTEKKILDIAVSLH 81
Cdd:PRK13500  203 SSETLLDKLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTECG 282

                          90       100
                  ....*....|....*....|....
gi 2113572521  82 FQSHEAFTRAFKNRYGVTPKQYRN 105
Cdd:PRK13500  283 FEDSNYFSVVFTRETGMTPSQWRH 306
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
2-105 1.19e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 42.73  E-value: 1.19e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   2 SSKKILEKAIIFIENNLYEPITPRNVANVVSYSYYHFHRYFHSMMGETISVYIRFRRLTEAAKALLYTEKKILDIAVSLH 81
Cdd:PRK13502  173 SRETLLDKLITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCG 252

                          90       100
                  ....*....|....*....|....
gi 2113572521  82 FQSHEAFTRAFKNRYGVTPKQYRN 105
Cdd:PRK13502  253 FEDSNYFSVVFTRETGMTPSQWRH 276
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
2-110 1.13e-03

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 39.96  E-value: 1.13e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2113572521   2 SSKKILEKAII----FIENNLYEPITPRNVANVVSYSYYHFHRYFHSMMGETIsvyIRFR---RLTEAAKALLYTEKKIL 74
Cdd:PRK10572  176 SLHPPMDPRVReacqYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISV---LRWRedqRISRAKLLLQTTRMPIA 252

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2113572521  75 DIAVSLHFQSHEAFTRAFKNRYGVTPKQYRNNRIDT 110
Cdd:PRK10572  253 TIGRNVGYDDQLYFSRVFKKCTGASPSEFRARCEEK 288
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
42-104 2.29e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 38.73  E-value: 2.29e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2113572521  42 FHSMMGETISVYIRFRRLTEAAKALLYTEKKILDIAVSLHFQSHEAFTRAFKNRYGVTPKQYR 104
Cdd:PRK13501  213 FRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYR 275
 
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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