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Conserved domains on  [gi|507084781|ref|WP_016155523|]
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MULTISPECIES: AraC family transcriptional regulator [Citrobacter]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 13673967)

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

CATH:  2.60.120.10
Gene Ontology:  GO:0003700|GO:0006355|GO:0043565
PubMed:  11282467|33837749|9409145|12270809|19478949|14697267|9573603
SCOP:  3001825

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 ...
 156-270 5.47e-24

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: 98.31  E-value: 5.47e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 156 QPLARHAPVLPEGAhRFERVREYLHDNYMHPVTLDELARVAALSPWHFQRQFKSHFHVTPHQMLMAIRLWRAKGFLTHG- 234
Cdd:COG4977  197 QFSPLLVPLGHRDP-RLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTd 275

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 507084781 235 MPAAEVAAATGLTDQSHLTRAFTHRYGITPVRYQKQ 270
Cdd:COG4977  276 LSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRR 311
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 24-152 3.38e-22

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: 89.42  E-value: 3.38e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781   24 PGVELYHAHISRYAFEPHTHEAFGIGAIEAGAERFRYRGTQYVAPAHSVVTMNPDELHTGEAETADGWRYRMIYLEPDLL 103
Cdd:pfam02311   2 PGLEGIEARYPGHSFPPHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESEDGWRYRWLYFEPELL 81

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 507084781  104 EEVTGIRHWwfHDVTRHDPLRSRQICSLIHGLW------NTEDPLAQKGLLLDLI 152
Cdd:pfam02311  82 ERILADISI--LAGGPLPLLRDPELAALLRALFrlleeaGRSDDLLAEALLYQLL 134
 
Name Accession Description Interval E-value
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 156-270 5.47e-24

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


Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 98.31  E-value: 5.47e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 156 QPLARHAPVLPEGAhRFERVREYLHDNYMHPVTLDELARVAALSPWHFQRQFKSHFHVTPHQMLMAIRLWRAKGFLTHG- 234
Cdd:COG4977  197 QFSPLLVPLGHRDP-RLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTd 275

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 507084781 235 MPAAEVAAATGLTDQSHLTRAFTHRYGITPVRYQKQ 270
Cdd:COG4977  276 LSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRR 311
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 24-152 3.38e-22

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: 89.42  E-value: 3.38e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781   24 PGVELYHAHISRYAFEPHTHEAFGIGAIEAGAERFRYRGTQYVAPAHSVVTMNPDELHTGEAETADGWRYRMIYLEPDLL 103
Cdd:pfam02311   2 PGLEGIEARYPGHSFPPHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESEDGWRYRWLYFEPELL 81

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 507084781  104 EEVTGIRHWwfHDVTRHDPLRSRQICSLIHGLW------NTEDPLAQKGLLLDLI 152
Cdd:pfam02311  82 ERILADISI--LAGGPLPLLRDPELAALLRALFrlleeaGRSDDLLAEALLYQLL 134
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
186-267 5.09e-21

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 84.53  E-value: 5.09e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781   186 PVTLDELARVAALSPWHFQRQFKSHFHVTPHQMLMAIRLWRAKGFLTHG-MPAAEVAAATGLTDQSHLTRAFTHRYGITP 264
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTdLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ...
gi 507084781   265 VRY 267
Cdd:smart00342  81 SEY 83
HTH_18 pfam12833
Helix-turn-helix domain;
192-270 1.91e-20

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 83.02  E-value: 1.91e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781  192 LARVAALSPWHFQRQFKSHFHVTPHQMLMAIRLWRAKGFLTH--GMPAAEVAAATGLTDQSHLTRAFTHRYGITPVRYQK 269
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 507084781  270 Q 270
Cdd:pfam12833  81 R 81
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
27-270 8.95e-20

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 85.99  E-value: 8.95e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781  27 ELYHAHISRYAFEPHTHEAFGIGAIEAGAERFRYRGTQYVAPAHSVVTMNPDELHTGEAETADGWRYRMIYLEPDLLEEV 106
Cdd:COG2207    9 LLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLAL 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 107 TGIRHWWFHDVTRHDPLRSRQICSLIHGLWNTEDPLAQKGLLLDLIDTFQPLARHAPVLPEGAHRFERVREYLHDNYMHP 186
Cdd:COG2207   89 LLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLL 168

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 187 VTLDELARVAALSPWHFQRQFKSHFHVTPHQMLMAIRLWRAKGFLTHG-MPAAEVAAATGLTDQSHLTRAFTHRYGITPV 265
Cdd:COG2207  169 LTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETdLSISEIAYELGFSSQSHFSRAFKKRFGVTPS 248


                 ....*
gi 507084781 266 RYQKQ 270
Cdd:COG2207  249 EYRKR 253
ftrA PRK09393
transcriptional activator FtrA; Provisional
 161-270 1.49e-11

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 63.44  E-value: 1.49e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 161 HAPVLPEGAHRFERVREYLHDNYMHPVTLDELARVAALSPWHFQRQFKSHFHVTPHQMLMAIRLWRAKGFL-THGMPAAE 239
Cdd:PRK09393 209 PRPVASRESDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLeSSALSIDQ 288

                         90       100       110
                 ....*....|....*....|....*....|.
gi 507084781 240 VAAATGLTDQSHLTRAFTHRYGITPVRYQKQ 270
Cdd:PRK09393 289 IAERAGFGSEESLRHHFRRRAATSPAAYRKR 319
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
37-264 1.06e-04

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 42.74  E-value: 1.06e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781  37 AFEPHTHEAFGIGAIEAGAERFRYRGTQYVAPAHSVVTMNPDELHTGEaETADGWRYRMIYLEPDLLEEVTGIRHWWFHD 116
Cdd:PRK13503  27 AFPEHHHDFHEIVIVEHGTGIHVFNGQPYTLSGGTVCFVRDHDRHLYE-HTDNLCLTNVLYRSPDAFRFLAGLNQLLPQE 105

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 117 VTRHDPLRSR-------QICSLIHGL------WNTEDPLAQKGLLLDLIdtfqPLARHAPVLPEGAHRFERVRE---YLH 180
Cdd:PRK13503 106 QDGQYPSHWRvnqsvlqQVRQLVAQMeqqeesNDLEAIASREILFMQLL----VLLRKSSLQENGENSDARLNQllaWLE 181

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 181 DNYMHPVTLDELARVAALSPWHFQRQFKSHFHVTPHQMLMAIRLWRAKGFLTHG-MPAAEVAAATGLTDQSHLTRAFTHR 259
Cdd:PRK13503 182 DHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSdASVTDIAYRCGFGDSNHFSTLFRRE 261


                 ....*
gi 507084781 260 YGITP 264
Cdd:PRK13503 262 FSWSP 266
cupin_YbfI-like_N cd07001
AraC/XylS family transcriptional regulators similar to Bacillus subtilis YbfI, N-terminal ...
 26-98 2.23e-03

AraC/XylS family transcriptional regulators similar to Bacillus subtilis YbfI, N-terminal cupin domain; This family contains bacterial proteins containing an AraC/XylS family helix-turn-helix (HTH) DNA-binding domain C-terminal to a cupin domain, and may be possible transcriptional regulators, including YbfI, an uncharacterized Bacillus subtilis. In Pseudomonas putida, this protein is thought to regulate the expression of phenylserine aldolase. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380405 [Multi-domain]  Cd Length: 76  Bit Score: 36.21  E-value: 2.23e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 507084781  26 VELYH-AHISRYAFEPHTHEAFGIGAIEAGAERFRYRGTQYVAPAHSVVTMNPDELHTGEAETADGWRYRMIYL 98
Cdd:cd07001    2 YEAYHfKGIMQKSFPNHFHDFYVIGFIESGQRTLFCEGKEYTVEPGDLLLINPRDVHSCIQISGRRLDYERINI 75
 
Name Accession Description Interval E-value
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 156-270 5.47e-24

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


Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 98.31  E-value: 5.47e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 156 QPLARHAPVLPEGAhRFERVREYLHDNYMHPVTLDELARVAALSPWHFQRQFKSHFHVTPHQMLMAIRLWRAKGFLTHG- 234
Cdd:COG4977  197 QFSPLLVPLGHRDP-RLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTd 275

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 507084781 235 MPAAEVAAATGLTDQSHLTRAFTHRYGITPVRYQKQ 270
Cdd:COG4977  276 LSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRR 311
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 24-152 3.38e-22

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: 89.42  E-value: 3.38e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781   24 PGVELYHAHISRYAFEPHTHEAFGIGAIEAGAERFRYRGTQYVAPAHSVVTMNPDELHTGEAETADGWRYRMIYLEPDLL 103
Cdd:pfam02311   2 PGLEGIEARYPGHSFPPHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESEDGWRYRWLYFEPELL 81

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 507084781  104 EEVTGIRHWwfHDVTRHDPLRSRQICSLIHGLW------NTEDPLAQKGLLLDLI 152
Cdd:pfam02311  82 ERILADISI--LAGGPLPLLRDPELAALLRALFrlleeaGRSDDLLAEALLYQLL 134
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
186-267 5.09e-21

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 84.53  E-value: 5.09e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781   186 PVTLDELARVAALSPWHFQRQFKSHFHVTPHQMLMAIRLWRAKGFLTHG-MPAAEVAAATGLTDQSHLTRAFTHRYGITP 264
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTdLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ...
gi 507084781   265 VRY 267
Cdd:smart00342  81 SEY 83
HTH_18 pfam12833
Helix-turn-helix domain;
192-270 1.91e-20

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 83.02  E-value: 1.91e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781  192 LARVAALSPWHFQRQFKSHFHVTPHQMLMAIRLWRAKGFLTH--GMPAAEVAAATGLTDQSHLTRAFTHRYGITPVRYQK 269
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 507084781  270 Q 270
Cdd:pfam12833  81 R 81
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
27-270 8.95e-20

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 85.99  E-value: 8.95e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781  27 ELYHAHISRYAFEPHTHEAFGIGAIEAGAERFRYRGTQYVAPAHSVVTMNPDELHTGEAETADGWRYRMIYLEPDLLEEV 106
Cdd:COG2207    9 LLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLAL 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 107 TGIRHWWFHDVTRHDPLRSRQICSLIHGLWNTEDPLAQKGLLLDLIDTFQPLARHAPVLPEGAHRFERVREYLHDNYMHP 186
Cdd:COG2207   89 LLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLL 168

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 187 VTLDELARVAALSPWHFQRQFKSHFHVTPHQMLMAIRLWRAKGFLTHG-MPAAEVAAATGLTDQSHLTRAFTHRYGITPV 265
Cdd:COG2207  169 LTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETdLSISEIAYELGFSSQSHFSRAFKKRFGVTPS 248


                 ....*
gi 507084781 266 RYQKQ 270
Cdd:COG2207  249 EYRKR 253
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 162-270 1.62e-19

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: 86.65  E-value: 1.62e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 162 APVLPEGAHRFERVREYLHDNYMHPVTLDELARVAALSPWHFQRQFKSHFHVTPHQMLMAIRLWRAKGFLTHGMPAAEVA 241
Cdd:COG2169   76 APGSPPRADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQTGLSVTDAA 155

                         90       100
                 ....*....|....*....|....*....
gi 507084781 242 AATGLTDQSHLTRAFTHRYGITPVRYQKQ 270
Cdd:COG2169  156 YAAGFGSLSRFYEAFKKLLGMTPSAYRRG 184
ftrA PRK09393
transcriptional activator FtrA; Provisional
 161-270 1.49e-11

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 63.44  E-value: 1.49e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 161 HAPVLPEGAHRFERVREYLHDNYMHPVTLDELARVAALSPWHFQRQFKSHFHVTPHQMLMAIRLWRAKGFL-THGMPAAE 239
Cdd:PRK09393 209 PRPVASRESDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLeSSALSIDQ 288

                         90       100       110
                 ....*....|....*....|....*....|.
gi 507084781 240 VAAATGLTDQSHLTRAFTHRYGITPVRYQKQ 270
Cdd:PRK09393 289 IAERAGFGSEESLRHHFRRRAATSPAAYRKR 319
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
186-269 5.42e-10

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


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 59.04  E-value: 5.42e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 186 PVTLDELARVAALSPWHFQRQFKSHFHVTPHQMLMAIRLWRAKGFLTHGMPAAEVAAATGLTDQSHLTRAFTHRYGITPV 265
Cdd:PRK15435  99 PVTLEALADQVAMSPFHLHRLFKATTGMTPKAWQQAWRARRLREALAKGESVTTSILNAGFPDSSSYYRKADETLGMTAK 178


                 ....
gi 507084781 266 RYQK 269
Cdd:PRK15435 179 QFRH 182
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
81-270 1.09e-06

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 48.82  E-value: 1.09e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781  81 HTGEAETADGWRYRMIYLEPdlleevtgiRHWW---------FHDVTR---HDPLRSRQICSL---IHGLWNTEDPLAQ- 144
Cdd:PRK10572  86 HYGRHPDSDEWYHQWVYFRP---------RAYWadwlnwpsiFAGVGRlriPDEALQPEFSDLfgqIEQAGQSEGRYSEl 156

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 145 ------KGLLLDLIdTFQPLARHAPVLPegahrfeRVRE---YLHDNYMHPVTLDELARVAALSPWHFQRQFKshfhvtp 215
Cdd:PRK10572 157 lamnllERLLLRCM-EAIPESLHPPMDP-------RVREacqYISDHLASEFDIESVAQHVCLSPSRLAHLFR------- 221

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 507084781 216 HQMLMAIRLWR-------AKGFL-THGMPAAEVAAATGLTDQSHLTRAFTHRYGITPVRYQKQ 270
Cdd:PRK10572 222 QQLGISVLRWRedqrisrAKLLLqTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEFRAR 284
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 179-219 3.70e-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: 42.91  E-value: 3.70e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 507084781  179 LHDNYMHPVTLDELARVAALSPWHFQRQFKSHFHVTPHQML 219
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYR 41
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
177-271 9.87e-06

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 43.76  E-value: 9.87e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 177 EYLHDNYMHPVTLDELARVAALSPWHFQRQFKSHFHVTPHQMLMAIRLWRAKGFL-THGMPAAEVAAATGLTDQSHLTRA 255
Cdd:PRK10219  12 AWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELrTTERPIFDIAMDLGYVSQQTFSRV 91

                         90
                 ....*....|....*.
gi 507084781 256 FTHRYGITPVRYQKQV 271
Cdd:PRK10219  92 FRRQFDRTPSDYRHRL 107
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
175-268 1.50e-05

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 43.55  E-value: 1.50e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 175 VREYLHDNYMHPVTLDELARVAALSPWHFQRQFKSHfhvTPHQMLMAIRLWR----AKGFLTHGMPAAEVAAATGLTDQS 250
Cdd:PRK11511  14 ILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKE---TGHSLGQYIRSRKmteiAQKLKESNEPILYLAERYGFESQQ 90

                         90
                 ....*....|....*...
gi 507084781 251 HLTRAFTHRYGITPVRYQ 268
Cdd:PRK11511  91 TLTRTFKNYFDVPPHKYR 108
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
124-268 5.81e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 43.50  E-value: 5.81e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 124 RSRQICSLIHGLWNTEDPLAQKG---LLLDLIDTFQPLARHAPVLPEGAHR--FERVREYLHDNYMHPVTLDELARVAAL 198
Cdd:PRK13502 125 QARQVINQLEHESNGRDPLANEMaelLFGQLVMTLKRHRYATDDLPATSREtlLDKLITALANSLECPFALDAFCQQEQC 204

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 507084781 199 SPWHFQRQFKSHFHVTPHQMLMAIRLWRAKGFLTHG-MPAAEVAAATGLTDQSHLTRAFTHRYGITPVRYQ 268
Cdd:PRK13502 205 SERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSpLMISEISMQCGFEDSNYFSVVFTRETGMTPSQWR 275
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
37-264 1.06e-04

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 42.74  E-value: 1.06e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781  37 AFEPHTHEAFGIGAIEAGAERFRYRGTQYVAPAHSVVTMNPDELHTGEaETADGWRYRMIYLEPDLLEEVTGIRHWWFHD 116
Cdd:PRK13503  27 AFPEHHHDFHEIVIVEHGTGIHVFNGQPYTLSGGTVCFVRDHDRHLYE-HTDNLCLTNVLYRSPDAFRFLAGLNQLLPQE 105

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 117 VTRHDPLRSR-------QICSLIHGL------WNTEDPLAQKGLLLDLIdtfqPLARHAPVLPEGAHRFERVRE---YLH 180
Cdd:PRK13503 106 QDGQYPSHWRvnqsvlqQVRQLVAQMeqqeesNDLEAIASREILFMQLL----VLLRKSSLQENGENSDARLNQllaWLE 181

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 181 DNYMHPVTLDELARVAALSPWHFQRQFKSHFHVTPHQMLMAIRLWRAKGFLTHG-MPAAEVAAATGLTDQSHLTRAFTHR 259
Cdd:PRK13503 182 DHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSdASVTDIAYRCGFGDSNHFSTLFRRE 261


                 ....*
gi 507084781 260 YGITP 264
Cdd:PRK13503 262 FSWSP 266
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
159-274 6.22e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 40.66  E-value: 6.22e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 159 ARHAPVLPEGaHRFERVREYLHDNYMHPVTLDELARVAALSPWHFQRQFKSHFHVTPHQMLMAIRLWRAKGFL-THGMPA 237
Cdd:PRK13501 166 AEQAHLLPDG-EQLDLIMSALQQSLGAYFDMADFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLrGSEHRI 244

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 507084781 238 AEVAAATGLTDQSHLTRAFTHRYGITPVRYQKQVVRR 274
Cdd:PRK13501 245 SDIAARCGFEDSNYFSAVFTREAGMTPRDYRQRFIRS 281
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 142-270 1.12e-03

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 39.52  E-value: 1.12e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 142 LAQKGLLLDLIDTFQPLARHAPVLPEGAHRFERVR--EYLHDNYMHPVTLDELARVAALSPWHFQRQFKSHfHVTPHQML 219
Cdd:PRK09978 112 LRKRALIFALLSVFLEDEHFIPLLLNVLQPNMRTRvcTVINNNIAHEWTLARIASELLMSPSLLKKKLREE-ETSYSQLL 190

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 507084781 220 MAIRLWRA-KGFLTHGMPAAEVAAATGLTDQSHLTRAFTHRYGITPVRYQKQ 270
Cdd:PRK09978 191 TECRMQRAlQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEYQER 242
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
185-269 2.00e-03

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 38.84  E-value: 2.00e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 507084781 185 HPVTLDELARVAALSPWHFQRQFKShfhVTPHQM---LMAIRLWRAKGFLT-HGMPAAEVAAATGLTDQSHLTRAFTHRY 260
Cdd:PRK15121  20 QPLSLDNVAAKAGYSKWHLQRMFKD---VTGHAIgayIRARRLSKAAVALRlTSRPILDIALQYRFDSQQTFTRAFKKQF 96


                 ....*....
gi 507084781 261 GITPVRYQK 269
Cdd:PRK15121  97 AQTPALYRR 105
cupin_YbfI-like_N cd07001
AraC/XylS family transcriptional regulators similar to Bacillus subtilis YbfI, N-terminal ...
 26-98 2.23e-03

AraC/XylS family transcriptional regulators similar to Bacillus subtilis YbfI, N-terminal cupin domain; This family contains bacterial proteins containing an AraC/XylS family helix-turn-helix (HTH) DNA-binding domain C-terminal to a cupin domain, and may be possible transcriptional regulators, including YbfI, an uncharacterized Bacillus subtilis. In Pseudomonas putida, this protein is thought to regulate the expression of phenylserine aldolase. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380405 [Multi-domain]  Cd Length: 76  Bit Score: 36.21  E-value: 2.23e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 507084781  26 VELYH-AHISRYAFEPHTHEAFGIGAIEAGAERFRYRGTQYVAPAHSVVTMNPDELHTGEAETADGWRYRMIYL 98
Cdd:cd07001    2 YEAYHfKGIMQKSFPNHFHDFYVIGFIESGQRTLFCEGKEYTVEPGDLLLINPRDVHSCIQISGRRLDYERINI 75
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 231-269 4.26e-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: 34.44  E-value: 4.26e-03
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 507084781  231 LTHGMPAAEVAAATGLtDQSHLTRAFTHRYGITPVRYQK 269
Cdd:pfam00165   5 LSTNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 42
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 238-270 8.91e-03

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 36.93  E-value: 8.91e-03
                         10        20        30
                 ....*....|....*....|....*....|...
gi 507084781 238 AEVAAATGLTDQSHLTRAFTHRYGITPVRYQKQ 270
Cdd:PRK09685 268 TSIAYKWGFSDSSHFSTAFKQRFGVSPGEYRRK 300
 
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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