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Conserved domains on  [gi|9948615|gb|AAG05944|]
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probable transcriptional regulator [Pseudomonas aeruginosa PAO1]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 12117664)

AraC family transcriptional regulator containing an AraC family helix-turn-helix (HTH) DNA-binding domain and an N-terminal arabinose binding domain, may regulate 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
Arabinose_bd pfam12625
Arabinose-binding domain of AraC transcription regulator, N-term; AraC is a bacterial ...
31-212 3.98e-41

Arabinose-binding domain of AraC transcription regulator, N-term; AraC is a bacterial transcriptional regulatory protein with a DNA-binding domain at the C-terminus, HTH_AraC, pfam00165, and this dimerization domain which harbours the arabinose-binding pocket at the N-terminus. AraC positively and negatively regulates expression of the proteins required for the uptake and catabolism of the sugar L-arabinose 1,2,3].


:

Pssm-ID: 432679  Cd Length: 185  Bit Score: 142.78  E-value: 3.98e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615     31 GGEQGEVLQAAGIDPQLLGKPYARVTSHAYSRLWLDLARRMDDEFFGMDS-RRLKSGSFAFMSRCAIHEQTLEPALTGIL 109
Cdd:pfam12625   1 GLDPAALLRRAGLDPALLADPDARVPLDQYLRLWEAAARELGDPALGLRLgRRLRPGSLGLLGYAALSSPTLGEALDRLL 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615    110 RFLCLQFDDFQPRL-QRRGGLAEIVLDEAPG-RYGRALSYFTLWMITHGLACWLVGRRIPILAIDLRCPQPDYIEDYRVM 187
Cdd:pfam12625  81 RYLRLLSDALELRLeEGEGGLARLRLDVRPIpGRRRDFLLELALAALLRLARWLLGRRLPPLRVEFPHPAPADAAEYERL 160
                         170       180
                  ....*....|....*....|....*
gi 9948615    188 FSDNLRFSRPLSRLLFNADCLALPV 212
Cdd:pfam12625 161 FGCPVRFGAPRNALVFDAADLDRPL 185
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
87-344 2.36e-18

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


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 83.68  E-value: 2.36e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615   87 SFAFMSRCAIHEQTLEPALTGILRFLCLQFDDFQPRLQRRGGLAEIVLDEAPGRYGRALSYFTLWMITHGLACWLVGRRI 166
Cdd:COG2207   1 LRLLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGL 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615  167 PILAIDLRCPQPDYIEDYRVMFSDNLRFSRPLSRLLFNADCLALPVRRDKRELRRFLLGAPANILVRYRDPQSLAARIKA 246
Cdd:COG2207  81 LLLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLL 160
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615  247 YLRSLRpgRWPDADALAGHFFMAPSTLRRKLSLE-GQSYQALKDQVRRDLAIARLDAGAANFAELALELGFADGSAFHKA 325
Cdd:COG2207 161 LLLLLL--LLLTLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRA 238
                       250
                ....*....|....*....
gi 9948615  326 FKKWTGSTPGQYRTQVAAE 344
Cdd:COG2207 239 FKKRFGVTPSEYRKRLRAR 257
 
Name Accession Description Interval E-value
Arabinose_bd pfam12625
Arabinose-binding domain of AraC transcription regulator, N-term; AraC is a bacterial ...
31-212 3.98e-41

Arabinose-binding domain of AraC transcription regulator, N-term; AraC is a bacterial transcriptional regulatory protein with a DNA-binding domain at the C-terminus, HTH_AraC, pfam00165, and this dimerization domain which harbours the arabinose-binding pocket at the N-terminus. AraC positively and negatively regulates expression of the proteins required for the uptake and catabolism of the sugar L-arabinose 1,2,3].


Pssm-ID: 432679  Cd Length: 185  Bit Score: 142.78  E-value: 3.98e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615     31 GGEQGEVLQAAGIDPQLLGKPYARVTSHAYSRLWLDLARRMDDEFFGMDS-RRLKSGSFAFMSRCAIHEQTLEPALTGIL 109
Cdd:pfam12625   1 GLDPAALLRRAGLDPALLADPDARVPLDQYLRLWEAAARELGDPALGLRLgRRLRPGSLGLLGYAALSSPTLGEALDRLL 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615    110 RFLCLQFDDFQPRL-QRRGGLAEIVLDEAPG-RYGRALSYFTLWMITHGLACWLVGRRIPILAIDLRCPQPDYIEDYRVM 187
Cdd:pfam12625  81 RYLRLLSDALELRLeEGEGGLARLRLDVRPIpGRRRDFLLELALAALLRLARWLLGRRLPPLRVEFPHPAPADAAEYERL 160
                         170       180
                  ....*....|....*....|....*
gi 9948615    188 FSDNLRFSRPLSRLLFNADCLALPV 212
Cdd:pfam12625 161 FGCPVRFGAPRNALVFDAADLDRPL 185
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
87-344 2.36e-18

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 83.68  E-value: 2.36e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615   87 SFAFMSRCAIHEQTLEPALTGILRFLCLQFDDFQPRLQRRGGLAEIVLDEAPGRYGRALSYFTLWMITHGLACWLVGRRI 166
Cdd:COG2207   1 LRLLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGL 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615  167 PILAIDLRCPQPDYIEDYRVMFSDNLRFSRPLSRLLFNADCLALPVRRDKRELRRFLLGAPANILVRYRDPQSLAARIKA 246
Cdd:COG2207  81 LLLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLL 160
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615  247 YLRSLRpgRWPDADALAGHFFMAPSTLRRKLSLE-GQSYQALKDQVRRDLAIARLDAGAANFAELALELGFADGSAFHKA 325
Cdd:COG2207 161 LLLLLL--LLLTLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRA 238
                       250
                ....*....|....*....
gi 9948615  326 FKKWTGSTPGQYRTQVAAE 344
Cdd:COG2207 239 FKKRFGVTPSEYRKRLRAR 257
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
260-338 2.45e-16

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 72.97  E-value: 2.45e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615     260 DALAGHFFMAPSTLRRKLSLE-GQSYQALKDQVRRDLAIARLDAGAANFAELALELGFADGSAFHKAFKKWTGSTPGQYR 338
Cdd:smart00342   5 EDLAEALGVSPRHLQRLFKKEtGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSEYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
262-340 1.23e-14

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 68.39  E-value: 1.23e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615    262 LAGHFFMAPSTLRRKLSLE-GQSYQALKDQVRRDLAIARL-DAGAANFAELALELGFADGSAFHKAFKKWTGSTPGQYRT 339
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRElGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80

                  .
gi 9948615    340 Q 340
Cdd:pfam12833  81 R 81
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
235-337 5.85e-09

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 56.54  E-value: 5.85e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615   235 RDPQS---------LAARIKAY-LRSLRPGRWPDADALAGHFFMAPSTLRRKLSLEGQSYQALKDQVRRDLAIARLDAGA 304
Cdd:PRK15185 191 RLPESyeiilssaqITLKERVYnIISSSPSRQWKLTDVADHIFMSTSTLKRKLAEEGTSFSDIYLSARMNQAAKLLRIGN 270
                         90       100       110
                 ....*....|....*....|....*....|...
gi 9948615   305 ANFAELALELGFADGSAFHKAFKKWTGSTPGQY 337
Cdd:PRK15185 271 HNVNAVALKCGYDSTSYFIQCFKKYFKTTPSTF 303
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
262-338 5.25e-07

YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only one protein with the YSIRK variant form of signal peptide (TIGR01168) were examined for conserved genes near that one tagged protein. This protein is found adjacent to at various classes of repetitive or low-complexity YSIRK proteins (whether unique in genome or not), in a range of species (Enterococcus faecalis X98, Ruminococcus torques, Coprobacillus sp. D7, Lysinibacillus fusiformis ZC1, Streptococcus equi subsp. equi 4047, etc). The affliated YSIRK proteins include Streptococcal protective antigen (see ) and proteins with the Rib/alpha/Esp surface antigen repeat (see TIGR02331). The last quarter of this protein has an AraC family helix-turn-helix (HTH)transcriptional regulator domain.


Pssm-ID: 274977 [Multi-domain]  Cd Length: 383  Bit Score: 50.83  E-value: 5.25e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 9948615    262 LAGHFFMAPSTLRRKLSLE-GQSYQALKDQVRRDLAIARLDAGAaNFAELALELGFADGSAFHKAFKKWTGSTPGQYR 338
Cdd:TIGR04094 307 IAKQFFMSESKLRKLFKKEmGISIQEYISKRKIEEAKYLLRSQI-PVSEVSNELGFYDLSHFSRTFKKHTGVSPKQYQ 383
 
Name Accession Description Interval E-value
Arabinose_bd pfam12625
Arabinose-binding domain of AraC transcription regulator, N-term; AraC is a bacterial ...
31-212 3.98e-41

Arabinose-binding domain of AraC transcription regulator, N-term; AraC is a bacterial transcriptional regulatory protein with a DNA-binding domain at the C-terminus, HTH_AraC, pfam00165, and this dimerization domain which harbours the arabinose-binding pocket at the N-terminus. AraC positively and negatively regulates expression of the proteins required for the uptake and catabolism of the sugar L-arabinose 1,2,3].


Pssm-ID: 432679  Cd Length: 185  Bit Score: 142.78  E-value: 3.98e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615     31 GGEQGEVLQAAGIDPQLLGKPYARVTSHAYSRLWLDLARRMDDEFFGMDS-RRLKSGSFAFMSRCAIHEQTLEPALTGIL 109
Cdd:pfam12625   1 GLDPAALLRRAGLDPALLADPDARVPLDQYLRLWEAAARELGDPALGLRLgRRLRPGSLGLLGYAALSSPTLGEALDRLL 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615    110 RFLCLQFDDFQPRL-QRRGGLAEIVLDEAPG-RYGRALSYFTLWMITHGLACWLVGRRIPILAIDLRCPQPDYIEDYRVM 187
Cdd:pfam12625  81 RYLRLLSDALELRLeEGEGGLARLRLDVRPIpGRRRDFLLELALAALLRLARWLLGRRLPPLRVEFPHPAPADAAEYERL 160
                         170       180
                  ....*....|....*....|....*
gi 9948615    188 FSDNLRFSRPLSRLLFNADCLALPV 212
Cdd:pfam12625 161 FGCPVRFGAPRNALVFDAADLDRPL 185
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
87-344 2.36e-18

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 83.68  E-value: 2.36e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615   87 SFAFMSRCAIHEQTLEPALTGILRFLCLQFDDFQPRLQRRGGLAEIVLDEAPGRYGRALSYFTLWMITHGLACWLVGRRI 166
Cdd:COG2207   1 LRLLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGL 80
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615  167 PILAIDLRCPQPDYIEDYRVMFSDNLRFSRPLSRLLFNADCLALPVRRDKRELRRFLLGAPANILVRYRDPQSLAARIKA 246
Cdd:COG2207  81 LLLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLL 160
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615  247 YLRSLRpgRWPDADALAGHFFMAPSTLRRKLSLE-GQSYQALKDQVRRDLAIARLDAGAANFAELALELGFADGSAFHKA 325
Cdd:COG2207 161 LLLLLL--LLLTLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRA 238
                       250
                ....*....|....*....
gi 9948615  326 FKKWTGSTPGQYRTQVAAE 344
Cdd:COG2207 239 FKKRFGVTPSEYRKRLRAR 257
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
260-338 2.45e-16

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 72.97  E-value: 2.45e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615     260 DALAGHFFMAPSTLRRKLSLE-GQSYQALKDQVRRDLAIARLDAGAANFAELALELGFADGSAFHKAFKKWTGSTPGQYR 338
Cdd:smart00342   5 EDLAEALGVSPRHLQRLFKKEtGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSEYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
262-340 1.23e-14

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 68.39  E-value: 1.23e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615    262 LAGHFFMAPSTLRRKLSLE-GQSYQALKDQVRRDLAIARL-DAGAANFAELALELGFADGSAFHKAFKKWTGSTPGQYRT 339
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRElGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80

                  .
gi 9948615    340 Q 340
Cdd:pfam12833  81 R 81
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
235-337 5.85e-09

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 56.54  E-value: 5.85e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615   235 RDPQS---------LAARIKAY-LRSLRPGRWPDADALAGHFFMAPSTLRRKLSLEGQSYQALKDQVRRDLAIARLDAGA 304
Cdd:PRK15185 191 RLPESyeiilssaqITLKERVYnIISSSPSRQWKLTDVADHIFMSTSTLKRKLAEEGTSFSDIYLSARMNQAAKLLRIGN 270
                         90       100       110
                 ....*....|....*....|....*....|...
gi 9948615   305 ANFAELALELGFADGSAFHKAFKKWTGSTPGQY 337
Cdd:PRK15185 271 HNVNAVALKCGYDSTSYFIQCFKKYFKTTPSTF 303
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
262-338 5.25e-07

YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only one protein with the YSIRK variant form of signal peptide (TIGR01168) were examined for conserved genes near that one tagged protein. This protein is found adjacent to at various classes of repetitive or low-complexity YSIRK proteins (whether unique in genome or not), in a range of species (Enterococcus faecalis X98, Ruminococcus torques, Coprobacillus sp. D7, Lysinibacillus fusiformis ZC1, Streptococcus equi subsp. equi 4047, etc). The affliated YSIRK proteins include Streptococcal protective antigen (see ) and proteins with the Rib/alpha/Esp surface antigen repeat (see TIGR02331). The last quarter of this protein has an AraC family helix-turn-helix (HTH)transcriptional regulator domain.


Pssm-ID: 274977 [Multi-domain]  Cd Length: 383  Bit Score: 50.83  E-value: 5.25e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 9948615    262 LAGHFFMAPSTLRRKLSLE-GQSYQALKDQVRRDLAIARLDAGAaNFAELALELGFADGSAFHKAFKKWTGSTPGQYR 338
Cdd:TIGR04094 307 IAKQFFMSESKLRKLFKKEmGISIQEYISKRKIEEAKYLLRSQI-PVSEVSNELGFYDLSHFSRTFKKHTGVSPKQYQ 383
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
240-346 1.32e-06

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: 49.67  E-value: 1.32e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615  240 LAARIKAYLRSLRPGRWPDADaLAGHFFMAPSTLRRKLSLE-GQSYQALKDQVRRDLAIARLDAGAaNFAELALELGFAD 318
Cdd:COG2169  85 LVARACRLIEAGAEDRPSLED-LAARLGLSPRHLRRLFKAHtGVTPKAYARARRLLRARQLLQTGL-SVTDAAYAAGFGS 162
                        90       100
                ....*....|....*....|....*...
gi 9948615  319 GSAFHKAFKKWTGSTPGQYRTQVAAETA 346
Cdd:COG2169 163 LSRFYEAFKKLLGMTPSAYRRGGAGAAI 190
PRK15044 PRK15044
transcriptional regulator SirC; Provisional
255-334 6.96e-06

transcriptional regulator SirC; Provisional


Pssm-ID: 185004 [Multi-domain]  Cd Length: 295  Bit Score: 47.34  E-value: 6.96e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615   255 RWPDADaLAGHFFMAPSTLRRKLSLEGQSYQALKDQVRRDLAIARLDAGAANFAELALELGFADGSAFHKAFKKWTGSTP 334
Cdd:PRK15044 208 KWSQAE-VAGKLFMSVSSLKRKLAAEEVSFSKIYLDARMNQAIKLLRMGAGNISQVATMCGYDTPSYFIAIFKRHFKITP 286
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
260-347 1.32e-05

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: 46.30  E-value: 1.32e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615  260 DALAGHFFMAPSTLRRKLSLE-GQS----YQALkdqvRRDLAIARLDAGAANFAELALELGFADGSAFHKAFKKWTGSTP 334
Cdd:COG4977 230 DELARRAGMSPRTLERRFRAAtGTTparyLQRL----RLERARRLLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSP 305
                        90
                ....*....|...
gi 9948615  335 GQYRTQVAAETAS 347
Cdd:COG4977 306 SAYRRRFRARAAA 318
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
306-339 2.66e-05

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: 40.99  E-value: 2.66e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 9948615    306 NFAELALELGFaDGSAFHKAFKKWTGSTPGQYRT 339
Cdd:pfam00165  10 TIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 42
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
262-355 4.99e-05

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 44.53  E-value: 4.99e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615   262 LAGHFFMAPSTLRRKLSLEGQSYQALKDQVRRDLAIARLDAGAANFAELALELGFADGSAFHKAFKKWTGSTPGQYRTQV 341
Cdd:PRK09978 164 IASELLMSPSLLKKKLREEETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEYQERS 243
                         90
                 ....*....|....
gi 9948615   342 AAETASAESSGVLS 355
Cdd:PRK09978 244 AQGLPNRDSAASIV 257
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
214-337 5.81e-05

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 44.29  E-value: 5.81e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948615   214 RDKRE-LRRFLLG-----APANILVRYRDPQSLAARIKAYLRSLRPGRWPDADaLAGHFFMAPSTLRRKLSLEGQSYQAL 287
Cdd:PRK15186 150 QDKKEyLIRFLLSefiyePEAFALFRELSQNTLAENIYNIIISDISRKWALKD-ISDSLYMSCSTLKRKLKQENTSFSEV 228
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 9948615   288 KDQVRRDLAIARLDAGAANFAELALELGFADGSAFHKAFKKWTGSTPGQY 337
Cdd:PRK15186 229 YLNARMNKATKLLRNSEYNITRVAYMCGYDSASYFTCVFKKHFKTTPSEF 278
SurA_N pfam09312
SurA N-terminal domain; This domain is found at the N-terminus of the chaperone SurA. It is a ...
268-300 1.73e-03

SurA N-terminal domain; This domain is found at the N-terminus of the chaperone SurA. It is a helical domain of unknown function. The C-terminus of the SurA protein folds back and forms part of this domain also but is not included in the current alignment.


Pssm-ID: 430518 [Multi-domain]  Cd Length: 118  Bit Score: 37.64  E-value: 1.73e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 9948615    268 MAPSTLRRKLSLEGQSYQALKDQVRRDLAIARL 300
Cdd:pfam09312  85 LTLDQLRQALAADGLSYDKFREQIRKEIIISRL 117
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
308-340 6.90e-03

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 38.09  E-value: 6.90e-03
                         10        20        30
                 ....*....|....*....|....*....|...
gi 9948615   308 AELALELGFADGSAFHKAFKKWTGSTPGQYRTQ 340
Cdd:PRK09685 268 TSIAYKWGFSDSSHFSTAFKQRFGVSPGEYRRK 300
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
289-338 9.36e-03

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 37.43  E-value: 9.36e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 9948615   289 DQVRRDLAIARLDAGAANFAELALELGFADGSAFHKAFKKWTGSTPGQYR 338
Cdd:PRK10296 222 NEIRINFAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYR 271
 
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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