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Conserved domains on  [gi|505448516|ref|WP_015635618|]
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AraC family transcriptional regulator [Pseudomonas protegens]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 12820790)

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

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
GlxA super family cl34854
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 158-266 6.82e-23

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: 95.22  E-value: 6.82e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516 158 IALAADPARASAGVRRVVDFLQCDPQQARPLEHLAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQAGEAS- 236
Cdd:COG4977  199 SPLLVPLGHRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSi 278

                         90       100       110
                 ....*....|....*....|....*....|
gi 505448516 237 AALAQRLGFADQAHFQRVFKAHVGVTPGLY 266
Cdd:COG4977  279 EEIAAACGFGSASHFRRAFRRRFGVSPSAY 308
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
31-268 3.08e-21

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


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 89.84  E-value: 3.08e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516  31 HSHPTVSIGAVDRGVSVFSGGAQGPTRIRAGSVVFVPADCAHACNPLPDSAWSYQMLHLDPRWVDAVREEAQQHGSALSQ 110
Cdd:COG2207   17 LLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLVGLLL 96

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516 111 VVLSHDSGLYQAFCRLNQLLFSNASWQHKEAALIEFIGGLATREQPVIALAADPARASAGVRRVVDFLqcdPQQARPLEH 190
Cdd:COG2207   97 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLL---LLLLLTLEE 173

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 505448516 191 LAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQAGEAS-AALAQRLGFADQAHFQRVFKAHVGVTPGLYKA 268
Cdd:COG2207  174 LARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSiSEIAYELGFSSQSHFSRAFKKRFGVTPSEYRK 252
 
Name Accession Description Interval E-value
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 158-266 6.82e-23

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: 95.22  E-value: 6.82e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516 158 IALAADPARASAGVRRVVDFLQCDPQQARPLEHLAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQAGEAS- 236
Cdd:COG4977  199 SPLLVPLGHRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSi 278

                         90       100       110
                 ....*....|....*....|....*....|
gi 505448516 237 AALAQRLGFADQAHFQRVFKAHVGVTPGLY 266
Cdd:COG4977  279 EEIAAACGFGSASHFRRAFRRRFGVSPSAY 308
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
188-267 7.04e-23

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 89.15  E-value: 7.04e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516   188 LEHLAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQAGEAS-AALAQRLGFADQAHFQRVFKAHVGVTPGLY 266
Cdd:smart00342   4 LEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSvTEIALRVGFSSQSYFSRAFKKLFGVTPSEY 83


                   .
gi 505448516   267 K 267
Cdd:smart00342  84 R 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
31-268 3.08e-21

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 89.84  E-value: 3.08e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516  31 HSHPTVSIGAVDRGVSVFSGGAQGPTRIRAGSVVFVPADCAHACNPLPDSAWSYQMLHLDPRWVDAVREEAQQHGSALSQ 110
Cdd:COG2207   17 LLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLVGLLL 96

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516 111 VVLSHDSGLYQAFCRLNQLLFSNASWQHKEAALIEFIGGLATREQPVIALAADPARASAGVRRVVDFLqcdPQQARPLEH 190
Cdd:COG2207   97 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLL---LLLLLTLEE 173

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 505448516 191 LAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQAGEAS-AALAQRLGFADQAHFQRVFKAHVGVTPGLYKA 268
Cdd:COG2207  174 LARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSiSEIAYELGFSSQSHFSRAFKKRFGVTPSEYRK 252
HTH_18 pfam12833
Helix-turn-helix domain;
191-268 5.33e-18

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 76.47  E-value: 5.33e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516  191 LAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASL--QAGEASAALAQRLGFADQAHFQRVFKAHVGVTPGLYKA 268
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLleDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
ftrA PRK09393
transcriptional activator FtrA; Provisional
 164-268 1.21e-14

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 72.30  E-value: 1.21e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516 164 PARASAGVRRVVDFLQCDPQQARPLEHLAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQAGEAS-AALAQR 242
Cdd:PRK09393 213 ASRESDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSiDQIAER 292

                         90       100
                 ....*....|....*....|....*.
gi 505448516 243 LGFADQAHFQRVFKAHVGVTPGLYKA 268
Cdd:PRK09393 293 AGFGSEESLRHHFRRRAATSPAAYRK 318
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 171-267 1.39e-12

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: 66.62  E-value: 1.39e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516  171 VRRVVDFLQCDPQQARPLEHLAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQAGEASAALAQRLGFADQAH 250
Cdd:TIGR04094 287 IRAVIQYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIEEAKYLLRSQIPVSEVSNELGFYDLSH 366

                          90
                  ....*....|....*..
gi 505448516  251 FQRVFKAHVGVTPGLYK 267
Cdd:TIGR04094 367 FSRTFKKHTGVSPKQYQ 383
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 13-147 1.13e-11

AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization domain of the bacterial gene regulatory protein AraC. The domain is found in conjunction with the helix-turn-helix (HTH) DNA-binding motif pfam00165. This domain is distantly related to the Cupin domain pfam00190.


Pssm-ID: 396749 [Multi-domain]  Cd Length: 134  Bit Score: 60.91  E-value: 1.13e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516   13 LPYVESRRACDSRANYKAHSHPTVSIGAVDRGVSVFSGGaQGPTRIRAGSVVFVPADCAHACNPLPDSAWSYQMLHLDPR 92
Cdd:pfam02311   1 NPGLEGIEARYPGHSFPPHVHDFYVIGYIERGVGRFRLN-GRTYHLGPGDLFLLPPGEPHDYEPESEDGWRYRWLYFEPE 79

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 505448516   93 WVDAVREEAQQHGSAlsQVVLSHDSGLYQAFCRL-NQLLFSNASWQHK-EAALIEFI 147
Cdd:pfam02311  80 LLERILADISILAGG--PLPLLRDPELAALLRALfRLLEEAGRSDDLLaEALLYQLL 134
 
Name Accession Description Interval E-value
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 158-266 6.82e-23

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: 95.22  E-value: 6.82e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516 158 IALAADPARASAGVRRVVDFLQCDPQQARPLEHLAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQAGEAS- 236
Cdd:COG4977  199 SPLLVPLGHRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSi 278

                         90       100       110
                 ....*....|....*....|....*....|
gi 505448516 237 AALAQRLGFADQAHFQRVFKAHVGVTPGLY 266
Cdd:COG4977  279 EEIAAACGFGSASHFRRAFRRRFGVSPSAY 308
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
188-267 7.04e-23

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 89.15  E-value: 7.04e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516   188 LEHLAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQAGEAS-AALAQRLGFADQAHFQRVFKAHVGVTPGLY 266
Cdd:smart00342   4 LEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSvTEIALRVGFSSQSYFSRAFKKLFGVTPSEY 83


                   .
gi 505448516   267 K 267
Cdd:smart00342  84 R 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
31-268 3.08e-21

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 89.84  E-value: 3.08e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516  31 HSHPTVSIGAVDRGVSVFSGGAQGPTRIRAGSVVFVPADCAHACNPLPDSAWSYQMLHLDPRWVDAVREEAQQHGSALSQ 110
Cdd:COG2207   17 LLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLVGLLL 96

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516 111 VVLSHDSGLYQAFCRLNQLLFSNASWQHKEAALIEFIGGLATREQPVIALAADPARASAGVRRVVDFLqcdPQQARPLEH 190
Cdd:COG2207   97 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLL---LLLLLTLEE 173

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 505448516 191 LAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQAGEAS-AALAQRLGFADQAHFQRVFKAHVGVTPGLYKA 268
Cdd:COG2207  174 LARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSiSEIAYELGFSSQSHFSRAFKKRFGVTPSEYRK 252
HTH_18 pfam12833
Helix-turn-helix domain;
191-268 5.33e-18

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 76.47  E-value: 5.33e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516  191 LAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASL--QAGEASAALAQRLGFADQAHFQRVFKAHVGVTPGLYKA 268
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLleDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 160-268 1.52e-16

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: 78.17  E-value: 1.52e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516 160 LAADPARASAGVRRVVDFLQCDPQQARPLEHLAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQAGEASAAL 239
Cdd:COG2169   75 LAPGSPPRADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQTGLSVTDA 154

                         90       100
                 ....*....|....*....|....*....
gi 505448516 240 AQRLGFADQAHFQRVFKAHVGVTPGLYKA 268
Cdd:COG2169  155 AYAAGFGSLSRFYEAFKKLLGMTPSAYRR 183
ftrA PRK09393
transcriptional activator FtrA; Provisional
 164-268 1.21e-14

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 72.30  E-value: 1.21e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516 164 PARASAGVRRVVDFLQCDPQQARPLEHLAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQAGEAS-AALAQR 242
Cdd:PRK09393 213 ASRESDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSiDQIAER 292

                         90       100
                 ....*....|....*....|....*.
gi 505448516 243 LGFADQAHFQRVFKAHVGVTPGLYKA 268
Cdd:PRK09393 293 AGFGSEESLRHHFRRRAATSPAAYRK 318
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 171-267 1.39e-12

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: 66.62  E-value: 1.39e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516  171 VRRVVDFLQCDPQQARPLEHLAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQAGEASAALAQRLGFADQAH 250
Cdd:TIGR04094 287 IRAVIQYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIEEAKYLLRSQIPVSEVSNELGFYDLSH 366

                          90
                  ....*....|....*..
gi 505448516  251 FQRVFKAHVGVTPGLYK 267
Cdd:TIGR04094 367 FSRTFKKHTGVSPKQYQ 383
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 13-147 1.13e-11

AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization domain of the bacterial gene regulatory protein AraC. The domain is found in conjunction with the helix-turn-helix (HTH) DNA-binding motif pfam00165. This domain is distantly related to the Cupin domain pfam00190.


Pssm-ID: 396749 [Multi-domain]  Cd Length: 134  Bit Score: 60.91  E-value: 1.13e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516   13 LPYVESRRACDSRANYKAHSHPTVSIGAVDRGVSVFSGGaQGPTRIRAGSVVFVPADCAHACNPLPDSAWSYQMLHLDPR 92
Cdd:pfam02311   1 NPGLEGIEARYPGHSFPPHVHDFYVIGYIERGVGRFRLN-GRTYHLGPGDLFLLPPGEPHDYEPESEDGWRYRWLYFEPE 79

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 505448516   93 WVDAVREEAQQHGSAlsQVVLSHDSGLYQAFCRL-NQLLFSNASWQHK-EAALIEFI 147
Cdd:pfam02311  80 LLERILADISILAGG--PLPLLRDPELAALLRALfRLLEEAGRSDDLLaEALLYQLL 134
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
188-268 1.58e-11

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 63.07  E-value: 1.58e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516 188 LEHLAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQ-AGEASAALAQRLGFADQAHFQRVFKAHVGVTPGLY 266
Cdd:PRK10572 202 IESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQtTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEF 281


                 ..
gi 505448516 267 KA 268
Cdd:PRK10572 282 RA 283
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 133-268 6.37e-10

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 58.50  E-value: 6.37e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516 133 NASWQHKEAALIEFIGGLatreQPVIA-LAADPARASAGVRRVVDF----LQCdpQQARPlEHLAELAGISRYQLIRAFr 207
Cdd:PRK09685 164 ALSETESEALLEALIALL----RPALHqRESVQPRRERQFQKVVALidqsIQE--EILRP-EWIAGELGISVRSLYRLF- 235

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 505448516 208 AATGMTPHAYQLNQRIIQARASLQA---GEASAALAQRLGFADQAHFQRVFKAHVGVTPGLYKA 268
Cdd:PRK09685 236 AEQGLVVAQYIRNRRLDRCADDLRPaadDEKITSIAYKWGFSDSSHFSTAFKQRFGVSPGEYRR 299
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
171-267 1.28e-07

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 49.33  E-value: 1.28e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516 171 VRRVVDFLQCDPQQARPLEHLAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASL-QAGEASAALAQRLGFADQA 249
Cdd:PRK11511  11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLkESNEPILYLAERYGFESQQ 90

                         90
                 ....*....|....*...
gi 505448516 250 HFQRVFKAHVGVTPGLYK 267
Cdd:PRK11511  91 TLTRTFKNYFDVPPHKYR 108
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
188-267 4.60e-07

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


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 50.18  E-value: 4.60e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516 188 LEHLAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQAGEASAALAQRLGFADQAHFQRVFKAHVGVTPGLYK 267
Cdd:PRK15435 102 LEALADQVAMSPFHLHRLFKATTGMTPKAWQQAWRARRLREALAKGESVTTSILNAGFPDSSSYYRKADETLGMTAKQFR 181
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 178-217 1.60e-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: 44.07  E-value: 1.60e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 505448516  178 LQCDPQQARPLEHLAELAGISRYQLIRAFRAATGMTPHAY 217
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQY 40
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
189-263 1.56e-05

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 45.05  E-value: 1.56e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 505448516 189 EHLAELAGISRYQLIRAFRAATGMTPHAYqLNQ-RIIQARASLQAGEASAA-LAQRLGFADQAHFQRVFKAHVGVTP 263
Cdd:PRK13503 191 EALADQFSLSLRTLHRQLKQQTGLTPQRY-LNRlRLLKARHLLRHSDASVTdIAYRCGFGDSNHFSTLFRREFSWSP 266
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
188-267 3.66e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 44.12  E-value: 3.66e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516 188 LEHLAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQAGEAS-AALAQRLGFADQAHFQRVFKAHVGVTPGLY 266
Cdd:PRK13501 195 MADFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRiSDIAARCGFEDSNYFSAVFTREAGMTPRDY 274


                 .
gi 505448516 267 K 267
Cdd:PRK13501 275 R 275
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
184-267 3.51e-04

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 39.14  E-value: 3.51e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516 184 QARPLEHLAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQAGEASA-ALAQRLGFADQAHFQRVFKAHVGVT 262
Cdd:PRK10219  20 QPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIfDIAMDLGYVSQQTFSRVFRRQFDRT 99


                 ....*
gi 505448516 263 PGLYK 267
Cdd:PRK10219 100 PSDYR 104
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
188-267 7.35e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 40.04  E-value: 7.35e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516 188 LEHLAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQAGE-ASAALAQRLGFADQAHFQRVFKAHVGVTPGLY 266
Cdd:PRK13502 195 LDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPlMISEISMQCGFEDSNYFSVVFTRETGMTPSQW 274


                 .
gi 505448516 267 K 267
Cdd:PRK13502 275 R 275
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 237-266 2.30e-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: 35.21  E-value: 2.30e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 505448516  237 AALAQRLGFaDQAHFQRVFKAHVGVTPGLY 266
Cdd:pfam00165  12 ADIADELGF-SRSYFSRLFKKYTGVTPSQY 40
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
164-267 8.57e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 37.00  E-value: 8.57e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505448516 164 PARASAGVRRVVDFLQCDPQQARPLEHLAELAGISRYQLIRAFRAATGMTPHAYQLNQRIIQARASLQAGEASAA-LAQR 242
Cdd:PRK13500 201 PTSSETLLDKLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISdISTE 280

                         90       100
                 ....*....|....*....|....*
gi 505448516 243 LGFADQAHFQRVFKAHVGVTPGLYK 267
Cdd:PRK13500 281 CGFEDSNYFSVVFTRETGMTPSQWR 305
 
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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