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Conserved domains on  [gi|490229807|ref|WP_004128154|]
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MULTISPECIES: AraC family transcriptional regulator [Klebsiella]

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 ...
 158-270 4.50e-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: 98.69  E-value: 4.50e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 158 FAHHAAALPEARHRFERVRDYLHDNYMRTVTLDELAQVAALSPYHFQRQFKAHFHVTPHQMLMAIRLWRAKAFLTHG-MP 236
Cdd:COG4977  198 FSPLLVPLGHRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTdLS 277

                         90       100       110
                 ....*....|....*....|....*....|....
gi 490229807 237 AADVALAAGLTDQSHLTRAFTRRYGITPVRYQKQ 270
Cdd:COG4977  278 IEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRR 311
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
16-274 1.24e-20

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


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 88.30  E-value: 1.24e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807  16 RFRHLAQLPGVELYHAHISRYAFEPHTHEAFGIGAIELGAERFRYRGSQHVASVNSIVTMNPDELHTGEAETADGWRYRM 95
Cdd:COG2207    2 RLLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807  96 IYLDPDTLEEVTGERHWWFSEVVRQDPLRSRQIGNLIYGLWHTDDPLAQQGLLLDLIDTFRPFAHHAAALPEARHRFERV 175
Cdd:COG2207   82 LLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLL 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 176 RDYLhdnyMRTVTLDELAQVAALSPYHFQRQFKAHFHVTPHQMLMAIRLWRAKAFLTHG-MPAADVALAAGLTDQSHLTR 254
Cdd:COG2207  162 LLLL----LLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETdLSISEIAYELGFSSQSHFSR 237

                        250       260
                 ....*....|....*....|
gi 490229807 255 AFTRRYGITPVRYQKQVLPR 274
Cdd:COG2207  238 AFKKRFGVTPSEYRKRLRAR 257
 
Name Accession Description Interval E-value
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 158-270 4.50e-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: 98.69  E-value: 4.50e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 158 FAHHAAALPEARHRFERVRDYLHDNYMRTVTLDELAQVAALSPYHFQRQFKAHFHVTPHQMLMAIRLWRAKAFLTHG-MP 236
Cdd:COG4977  198 FSPLLVPLGHRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTdLS 277

                         90       100       110
                 ....*....|....*....|....*....|....
gi 490229807 237 AADVALAAGLTDQSHLTRAFTRRYGITPVRYQKQ 270
Cdd:COG4977  278 IEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRR 311
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
187-267 1.69e-21

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 85.68  E-value: 1.69e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807   187 VTLDELAQVAALSPYHFQRQFKAHFHVTPHQMLMAIRLWRAKAFLTHG-MPAADVALAAGLTDQSHLTRAFTRRYGITPV 265
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTdLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ..
gi 490229807   266 RY 267
Cdd:smart00342  82 EY 83
HTH_18 pfam12833
Helix-turn-helix domain;
192-270 7.73e-21

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 83.79  E-value: 7.73e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807  192 LAQVAALSPYHFQRQFKAHFHVTPHQMLMAIRLWRAKAFLTH--GMPAADVALAAGLTDQSHLTRAFTRRYGITPVRYQK 269
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 490229807  270 Q 270
Cdd:pfam12833  81 R 81
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
16-274 1.24e-20

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 88.30  E-value: 1.24e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807  16 RFRHLAQLPGVELYHAHISRYAFEPHTHEAFGIGAIELGAERFRYRGSQHVASVNSIVTMNPDELHTGEAETADGWRYRM 95
Cdd:COG2207    2 RLLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807  96 IYLDPDTLEEVTGERHWWFSEVVRQDPLRSRQIGNLIYGLWHTDDPLAQQGLLLDLIDTFRPFAHHAAALPEARHRFERV 175
Cdd:COG2207   82 LLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLL 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 176 RDYLhdnyMRTVTLDELAQVAALSPYHFQRQFKAHFHVTPHQMLMAIRLWRAKAFLTHG-MPAADVALAAGLTDQSHLTR 254
Cdd:COG2207  162 LLLL----LLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETdLSISEIAYELGFSSQSHFSR 237

                        250       260
                 ....*....|....*....|
gi 490229807 255 AFTRRYGITPVRYQKQVLPR 274
Cdd:COG2207  238 AFKKRFGVTPSEYRKRLRAR 257
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 23-152 3.24e-20

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: 84.02  E-value: 3.24e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807   23 LPGVELYHAHISRYAFEPHTHEAFGIGAIELGAERFRYRGSQHVASVNSIVTMNPDELHTGEAETADGWRYRMIYLDPDT 102
Cdd:pfam02311   1 NPGLEGIEARYPGHSFPPHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESEDGWRYRWLYFEPEL 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 490229807  103 LEEVTGERHWWFS--EVVRQDPLRSRQIGNLIYGLWHTD--DPLAQQGLLLDLI 152
Cdd:pfam02311  81 LERILADISILAGgpLPLLRDPELAALLRALFRLLEEAGrsDDLLAEALLYQLL 134
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
187-269 4.22e-13

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


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 68.28  E-value: 4.22e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 187 VTLDELAQVAALSPYHFQRQFKAHFHVTPHQMLMAIRLWRAKAFLTHGMPAADVALAAGLTDQSHLTRAFTRRYGITPVR 266
Cdd:PRK15435 100 VTLEALADQVAMSPFHLHRLFKATTGMTPKAWQQAWRARRLREALAKGESVTTSILNAGFPDSSSYYRKADETLGMTAKQ 179


                 ...
gi 490229807 267 YQK 269
Cdd:PRK15435 180 FRH 182
 
Name Accession Description Interval E-value
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 158-270 4.50e-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: 98.69  E-value: 4.50e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 158 FAHHAAALPEARHRFERVRDYLHDNYMRTVTLDELAQVAALSPYHFQRQFKAHFHVTPHQMLMAIRLWRAKAFLTHG-MP 236
Cdd:COG4977  198 FSPLLVPLGHRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTdLS 277

                         90       100       110
                 ....*....|....*....|....*....|....
gi 490229807 237 AADVALAAGLTDQSHLTRAFTRRYGITPVRYQKQ 270
Cdd:COG4977  278 IEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRR 311
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
187-267 1.69e-21

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 85.68  E-value: 1.69e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807   187 VTLDELAQVAALSPYHFQRQFKAHFHVTPHQMLMAIRLWRAKAFLTHG-MPAADVALAAGLTDQSHLTRAFTRRYGITPV 265
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTdLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ..
gi 490229807   266 RY 267
Cdd:smart00342  82 EY 83
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 162-270 3.68e-21

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: 91.27  E-value: 3.68e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 162 AAALPEARHRFERVRDYLHDNYMRTVTLDELAQVAALSPYHFQRQFKAHFHVTPHQMLMAIRLWRAKAFLTHGMPAADVA 241
Cdd:COG2169   76 APGSPPRADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQTGLSVTDAA 155

                         90       100
                 ....*....|....*....|....*....
gi 490229807 242 LAAGLTDQSHLTRAFTRRYGITPVRYQKQ 270
Cdd:COG2169  156 YAAGFGSLSRFYEAFKKLLGMTPSAYRRG 184
HTH_18 pfam12833
Helix-turn-helix domain;
192-270 7.73e-21

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 83.79  E-value: 7.73e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807  192 LAQVAALSPYHFQRQFKAHFHVTPHQMLMAIRLWRAKAFLTH--GMPAADVALAAGLTDQSHLTRAFTRRYGITPVRYQK 269
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 490229807  270 Q 270
Cdd:pfam12833  81 R 81
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
16-274 1.24e-20

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 88.30  E-value: 1.24e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807  16 RFRHLAQLPGVELYHAHISRYAFEPHTHEAFGIGAIELGAERFRYRGSQHVASVNSIVTMNPDELHTGEAETADGWRYRM 95
Cdd:COG2207    2 RLLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807  96 IYLDPDTLEEVTGERHWWFSEVVRQDPLRSRQIGNLIYGLWHTDDPLAQQGLLLDLIDTFRPFAHHAAALPEARHRFERV 175
Cdd:COG2207   82 LLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLL 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 176 RDYLhdnyMRTVTLDELAQVAALSPYHFQRQFKAHFHVTPHQMLMAIRLWRAKAFLTHG-MPAADVALAAGLTDQSHLTR 254
Cdd:COG2207  162 LLLL----LLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETdLSISEIAYELGFSSQSHFSR 237

                        250       260
                 ....*....|....*....|
gi 490229807 255 AFTRRYGITPVRYQKQVLPR 274
Cdd:COG2207  238 AFKKRFGVTPSEYRKRLRAR 257
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 23-152 3.24e-20

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: 84.02  E-value: 3.24e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807   23 LPGVELYHAHISRYAFEPHTHEAFGIGAIELGAERFRYRGSQHVASVNSIVTMNPDELHTGEAETADGWRYRMIYLDPDT 102
Cdd:pfam02311   1 NPGLEGIEARYPGHSFPPHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESEDGWRYRWLYFEPEL 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 490229807  103 LEEVTGERHWWFS--EVVRQDPLRSRQIGNLIYGLWHTD--DPLAQQGLLLDLI 152
Cdd:pfam02311  81 LERILADISILAGgpLPLLRDPELAALLRALFRLLEEAGrsDDLLAEALLYQLL 134
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
187-269 4.22e-13

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


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 68.28  E-value: 4.22e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 187 VTLDELAQVAALSPYHFQRQFKAHFHVTPHQMLMAIRLWRAKAFLTHGMPAADVALAAGLTDQSHLTRAFTRRYGITPVR 266
Cdd:PRK15435 100 VTLEALADQVAMSPFHLHRLFKATTGMTPKAWQQAWRARRLREALAKGESVTTSILNAGFPDSSSYYRKADETLGMTAKQ 179


                 ...
gi 490229807 267 YQK 269
Cdd:PRK15435 180 FRH 182
ftrA PRK09393
transcriptional activator FtrA; Provisional
 156-270 4.53e-12

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 64.99  E-value: 4.53e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 156 RPFAHHAAAlpearhRFERVRDYLHDNYMRTVTLDELAQVAALSPYHFQRQFKAHFHVTPHQMLMAIRLWRAKAFL-THG 234
Cdd:PRK09393 210 RPVASRESD------RLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLeSSA 283

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 490229807 235 MPAADVALAAGLTDQSHLTRAFTRRYGITPVRYQKQ 270
Cdd:PRK09393 284 LSIDQIAERAGFGSEESLRHHFRRRAATSPAAYRKR 319
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
81-273 9.21e-08

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 51.90  E-value: 9.21e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807  81 HTGEAETADGWRYRMIYLDPdtleevtgeRHWWfsevvrQDPLRSRQIGNLIYGLWHTDDPLAQQ--GLLLDLIDTF--- 155
Cdd:PRK10572  86 HYGRHPDSDEWYHQWVYFRP---------RAYW------ADWLNWPSIFAGVGRLRIPDEALQPEfsDLFGQIEQAGqse 150

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 156 RPFAHHAA-------------ALPEARHRF--ERVRD---YLHDNYMRTVTLDELAQVAALSPYHFQRQFKahfhvtpHQ 217
Cdd:PRK10572 151 GRYSELLAmnllerlllrcmeAIPESLHPPmdPRVREacqYISDHLASEFDIESVAQHVCLSPSRLAHLFR-------QQ 223

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 490229807 218 MLMAIRLWR-------AKAFL-THGMPAADVALAAGLTDQSHLTRAFTRRYGITPVRYQKQVLP 273
Cdd:PRK10572 224 LGISVLRWRedqrisrAKLLLqTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEFRARCEE 287
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 179-219 1.77e-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: 43.68  E-value: 1.77e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 490229807  179 LHDNYMRTVTLDELAQVAALSPYHFQRQFKAHFHVTPHQML 219
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYR 41
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
171-264 2.27e-06

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 47.75  E-value: 2.27e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 171 RFERVRDYLHDNYMRTVTLDELAQVAALSPYHFQRQFKAHFHVTPHQMLMAIRLWRAKAFLTHG-MPAADVALAAGLTDQ 249
Cdd:PRK13503 172 RLNQLLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSdASVTDIAYRCGFGDS 251

                         90
                 ....*....|....*
gi 490229807 250 SHLTRAFTRRYGITP 264
Cdd:PRK13503 252 NHFSTLFRREFSWSP 266
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
124-268 1.46e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 45.43  E-value: 1.46e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 124 RSRQIGNLIYGLWHTDDPLAQQG---LLLDLIDTFRPFAHHAAALPEARHR--FERVRDYLHDNYMRTVTLDELAQVAAL 198
Cdd:PRK13502 125 QARQVINQLEHESNGRDPLANEMaelLFGQLVMTLKRHRYATDDLPATSREtlLDKLITALANSLECPFALDAFCQQEQC 204

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 490229807 199 SPYHFQRQFKAHFHVTPHQMLMAIRLWRAKAFLTHG-MPAADVALAAGLTDQSHLTRAFTRRYGITPVRYQ 268
Cdd:PRK13502 205 SERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSpLMISEISMQCGFEDSNYFSVVFTRETGMTPSQWR 275
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 231-269 1.42e-04

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: 38.67  E-value: 1.42e-04
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 490229807  231 LTHGMPAADVALAAGLtDQSHLTRAFTRRYGITPVRYQK 269
Cdd:pfam00165   5 LSTNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 42
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
175-269 1.99e-04

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 41.92  E-value: 1.99e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 175 VRDYLH--DNYM-RTVTLDELAQVAALSPYHFQRQFKahfHVTPHQMLMAIRLWR----AKAFLTHGMPAADVALAAGLT 247
Cdd:PRK15121   7 IRDLLIwlEGHLdQPLSLDNVAAKAGYSKWHLQRMFK---DVTGHAIGAYIRARRlskaAVALRLTSRPILDIALQYRFD 83

                         90       100
                 ....*....|....*....|..
gi 490229807 248 DQSHLTRAFTRRYGITPVRYQK 269
Cdd:PRK15121  84 SQQTFTRAFKKQFAQTPALYRR 105
PRK10371 PRK10371
transcriptional regulator MelR;
177-269 3.95e-04

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 40.96  E-value: 3.95e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 177 DYLHDNYMRTVTLDELAQVAALSPYHFQRQFKAHFHVTPHQMLMAIRLWRAKAFLTH-GMPAADVALAAGLTDQSHLTRA 255
Cdd:PRK10371 198 GFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDtDKSILDIALTAGFRSSSRFYST 277

                         90
                 ....*....|....
gi 490229807 256 FTRRYGITPVRYQK 269
Cdd:PRK10371 278 FGKYVGMSPQQYRK 291
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
189-268 5.72e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 40.86  E-value: 5.72e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 189 LDELAQVAALSPYHFQRQFKAHFHVTPHQMLMAIRLWRAKAFLTHG-MPAADVALAAGLTDQSHLTRAFTRRYGITPVRY 267
Cdd:PRK13500 225 LDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSrLLISDISTECGFEDSNYFSVVFTRETGMTPSQW 304


                 .
gi 490229807 268 Q 268
Cdd:PRK13500 305 R 305
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
140-270 7.25e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 40.27  E-value: 7.25e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 140 DPLAQQ---GLLLDLIDTFRPF---AHHAAALPEARhRFERVRDYLHDNYMRTVTLDELAQVAALSPYHFQRQFKAHFHV 213
Cdd:PRK13501 141 DSWSIQlteVLLLQLAIVLKRHryrAEQAHLLPDGE-QLDLIMSALQQSLGAYFDMADFCHKNQLVERSLKQLFRQQTGM 219

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 490229807 214 TPHQMLMAIRLWRAKAFL-THGMPAADVALAAGLTDQSHLTRAFTRRYGITPVRYQKQ 270
Cdd:PRK13501 220 SISHYLRQIRLCHAKCLLrGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQR 277
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
175-273 1.28e-03

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 38.16  E-value: 1.28e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 175 VRDYLHDNYMRTVTLDELAQVAALSPYHFQRQFKAHfhvTPHQMLMAIRLWR----AKAFLTHGMPAADVALAAGLTDQS 250
Cdd:PRK11511  14 ILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKE---TGHSLGQYIRSRKmteiAQKLKESNEPILYLAERYGFESQQ 90

                         90       100
                 ....*....|....*....|...
gi 490229807 251 HLTRAFTRRYGITPVRYQKQVLP 273
Cdd:PRK11511  91 TLTRTFKNYFDVPPHKYRMTNMQ 113
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 174-270 2.14e-03

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 38.75  E-value: 2.14e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490229807 174 RVRDYLHDNYMRTVTLDELAQVAALSPYHFQRQFKAHfHVTPHQMLMAIRLWRA-KAFLTHGMPAADVALAAGLTDQSHL 252
Cdd:PRK09978 146 RVCTVINNNIAHEWTLARIASELLMSPSLLKKKLREE-ETSYSQLLTECRMQRAlQLIVIHGFSIKRVAVSCGYHSVSYF 224

                         90
                 ....*....|....*...
gi 490229807 253 TRAFTRRYGITPVRYQKQ 270
Cdd:PRK09978 225 IYVFRNYYGMTPTEYQER 242
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 238-272 2.71e-03

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 38.47  E-value: 2.71e-03
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 490229807 238 ADVALAAGLTDQSHLTRAFTRRYGITPVRYQKQVL 272
Cdd:PRK09685 268 TSIAYKWGFSDSSHFSTAFKQRFGVSPGEYRRKFR 302
 
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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