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Conserved domains on  [gi|488421551|ref|WP_002490936|]
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MULTISPECIES: AraC family transcriptional regulator [Staphylococcus]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 11454545)

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Cass2 pfam14526
Integron-associated effector binding protein; This family contains Cass2 from Vibrio cholerae, ...
 131-280 3.52e-27

Integron-associated effector binding protein; This family contains Cass2 from Vibrio cholerae, an integron-associated protein that has been shown to bind cationic drug compounds with submicromolar affinity. Cass2 has been proposed to be representative of a larger family of independent effector-binding proteins associated with lateral gene transfer within Vibrio and other closely-related species.


:

Pssm-ID: 434016 [Multi-domain]  Cd Length: 149  Bit Score: 103.21  E-value: 3.52e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551  131 RLQETDDISLVGYSRFIPTKQLSNPFNIPDFLEDLLVDGYIKELKryNDTSPYELFVVSCPLEQGLEIFVGVPSERY--- 207
Cdd:pfam14526   1 EIVELPSFTVAGIRYEGPNEYEDHNKEIGKFWEEFNEDGRLPNIK--KDDKSYGIYVDYEDEENEFDYYAGVEVPSFsel 78

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488421551  208 PSHLESRFLPGRHYALFNLQGEIDYATNEAWYYIESSLQLTLPYER-NSLYVEIYPidiSFNDPFTKIQLWLPI 280
Cdd:pfam14526  79 PEGLVVIEIPGGKYAVFTIEGDFPDAIAEAWTRIYGWLLPNSGYERaGGPDFEVYK---ENGDENMKIELYIPV 149
HTH_ARAC super family cl33243
helix_turn_helix, arabinose operon control protein;
21-100 1.08e-11

helix_turn_helix, arabinose operon control protein;


The actual alignment was detected with superfamily member smart00342:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 59.87  E-value: 1.08e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551    21 PFNLQELSDYVGLSPYHLDQSFKMIVGQSPEEYARARKMTIAANDVVNGASRLMDVAKKYRYANSNDFANDFSDFHGISP 100
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80
 
Name Accession Description Interval E-value
Cass2 pfam14526
Integron-associated effector binding protein; This family contains Cass2 from Vibrio cholerae, ...
 131-280 3.52e-27

Integron-associated effector binding protein; This family contains Cass2 from Vibrio cholerae, an integron-associated protein that has been shown to bind cationic drug compounds with submicromolar affinity. Cass2 has been proposed to be representative of a larger family of independent effector-binding proteins associated with lateral gene transfer within Vibrio and other closely-related species.


Pssm-ID: 434016 [Multi-domain]  Cd Length: 149  Bit Score: 103.21  E-value: 3.52e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551  131 RLQETDDISLVGYSRFIPTKQLSNPFNIPDFLEDLLVDGYIKELKryNDTSPYELFVVSCPLEQGLEIFVGVPSERY--- 207
Cdd:pfam14526   1 EIVELPSFTVAGIRYEGPNEYEDHNKEIGKFWEEFNEDGRLPNIK--KDDKSYGIYVDYEDEENEFDYYAGVEVPSFsel 78

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488421551  208 PSHLESRFLPGRHYALFNLQGEIDYATNEAWYYIESSLQLTLPYER-NSLYVEIYPidiSFNDPFTKIQLWLPI 280
Cdd:pfam14526  79 PEGLVVIEIPGGKYAVFTIEGDFPDAIAEAWTRIYGWLLPNSGYERaGGPDFEVYK---ENGDENMKIELYIPV 149
YdeE COG3708
Predicted transcriptional regulator YdeE, contains AraC-type DNA-binding domain [Transcription] ...
 129-281 3.17e-14

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


Pssm-ID: 442922  Cd Length: 157  Bit Score: 68.89  E-value: 3.17e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551 129 TYRLQETDDISLVGYSRFIPTKQLSNPFNIPDFLEDLLVDGYIKELKRYNDTSPYELFVVSCPLEQGLEIFVGVPSERY- 207
Cdd:COG3708    2 EYRIVEKPAFKLVGLSARTSNSDEEANEEIPALWQRFLPEGLAEIPNLSNPGGLYGVCTDYESDEGEFDYLAGVEVSSFd 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 488421551 208 --PSHLESRFLPGRHYALFNLQGEIDYATNEAWYYIESSLQLTLPYERNSLY-VEIYPIDiSFNDPFTKIQLWLPIK 281
Cdd:COG3708   82 evPEGLETLEIPAGTYAVFTHKGPMPEALQETWQYIYSEWLPSSGYERADGPdFEVYDER-DDPSPDSEVEIWIPIK 157
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
21-100 1.08e-11

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 59.87  E-value: 1.08e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551    21 PFNLQELSDYVGLSPYHLDQSFKMIVGQSPEEYARARKMTIAANDVVNGASRLMDVAKKYRYANSNDFANDFSDFHGISP 100
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
14-100 1.56e-11

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 63.26  E-value: 1.56e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551  14 IEDRLLEPFNLQELSDYVGLSPYHLDQSFKMIVGQSPEEYARARKMTIAANDVVNGASRLMDVAKKYRYANSNDFANDFS 93
Cdd:COG2207  161 LLLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFK 240


                 ....*..
gi 488421551  94 DFHGISP 100
Cdd:COG2207  241 KRFGVTP 247
AraC_E_bind smart00871
Bacterial transcription activator, effector binding domain; This domain is found in the ...
 130-281 1.89e-09

Bacterial transcription activator, effector binding domain; This domain is found in the probable effector binding domain of a number of different bacterial transcription activators.and is also present in some DNA gyrase inhibitors. The absence of a HTH motif in the DNA gyrase inhibitors is thought to indicate the fact that these do not bind DNA.


Pssm-ID: 214874 [Multi-domain]  Cd Length: 158  Bit Score: 55.56  E-value: 1.89e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551   130 YRLQETDDISLVGYSRFIPTKQLsnpfNIPDFLEDLLVDGYIKELKRY-NDTSPYELFVVSCPLEQ--GLEIFVGVPSER 206
Cdd:smart00871   2 VRIVELPAFKVAGLRHRGPNEDE----KIPELWQRLIQWAKELGLLPVgNSGEPYGVYYDDPDDTPdgEFRYDAGVEVSD 77

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551   207 Y---PSHLESRFLPGRHYALFNLQGEIDYATNEAWYYIESSLQLTLPYER--NSLYVEIYPIDISFNDP-FTKIQLWLPI 280
Cdd:smart00871  78 EveaPEGVETKTIPAGKYAVFTHKGGSYDEIQEAWEAIYGEWLPNSGYELrdAGPDFEVYLNDPPDTDPeELVTEIYIPV 157


                   .
gi 488421551   281 K 281
Cdd:smart00871 158 K 158
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
7-100 8.84e-09

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 52.80  E-value: 8.84e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551   7 IQQAIVYIEDRLLEPFNLQELSDYVGLSPYHLDQSFKMIVGQSPEEYARARKMTIAANDVVNGASRLMDVAKKYRYANSN 86
Cdd:PRK11511  11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFESQQ 90

                         90
                 ....*....|....
gi 488421551  87 DFANDFSDFHGISP 100
Cdd:PRK11511  91 TLTRTFKNYFDVPP 104
HTH_18 pfam12833
Helix-turn-helix domain;
27-100 4.59e-08

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 49.51  E-value: 4.59e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 488421551   27 LSDYVGLSPYHLDQSFKMIVGQSPEEYARARKMTIAANDVVNGASR-LMDVAKKYRYANSNDFANDFSDFHGISP 100
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDTGLsVAEIALALGFSDASHFSRAFRRLFGLTP 75
 
Name Accession Description Interval E-value
Cass2 pfam14526
Integron-associated effector binding protein; This family contains Cass2 from Vibrio cholerae, ...
 131-280 3.52e-27

Integron-associated effector binding protein; This family contains Cass2 from Vibrio cholerae, an integron-associated protein that has been shown to bind cationic drug compounds with submicromolar affinity. Cass2 has been proposed to be representative of a larger family of independent effector-binding proteins associated with lateral gene transfer within Vibrio and other closely-related species.


Pssm-ID: 434016 [Multi-domain]  Cd Length: 149  Bit Score: 103.21  E-value: 3.52e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551  131 RLQETDDISLVGYSRFIPTKQLSNPFNIPDFLEDLLVDGYIKELKryNDTSPYELFVVSCPLEQGLEIFVGVPSERY--- 207
Cdd:pfam14526   1 EIVELPSFTVAGIRYEGPNEYEDHNKEIGKFWEEFNEDGRLPNIK--KDDKSYGIYVDYEDEENEFDYYAGVEVPSFsel 78

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488421551  208 PSHLESRFLPGRHYALFNLQGEIDYATNEAWYYIESSLQLTLPYER-NSLYVEIYPidiSFNDPFTKIQLWLPI 280
Cdd:pfam14526  79 PEGLVVIEIPGGKYAVFTIEGDFPDAIAEAWTRIYGWLLPNSGYERaGGPDFEVYK---ENGDENMKIELYIPV 149
YdeE COG3708
Predicted transcriptional regulator YdeE, contains AraC-type DNA-binding domain [Transcription] ...
 129-281 3.17e-14

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


Pssm-ID: 442922  Cd Length: 157  Bit Score: 68.89  E-value: 3.17e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551 129 TYRLQETDDISLVGYSRFIPTKQLSNPFNIPDFLEDLLVDGYIKELKRYNDTSPYELFVVSCPLEQGLEIFVGVPSERY- 207
Cdd:COG3708    2 EYRIVEKPAFKLVGLSARTSNSDEEANEEIPALWQRFLPEGLAEIPNLSNPGGLYGVCTDYESDEGEFDYLAGVEVSSFd 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 488421551 208 --PSHLESRFLPGRHYALFNLQGEIDYATNEAWYYIESSLQLTLPYERNSLY-VEIYPIDiSFNDPFTKIQLWLPIK 281
Cdd:COG3708   82 evPEGLETLEIPAGTYAVFTHKGPMPEALQETWQYIYSEWLPSSGYERADGPdFEVYDER-DDPSPDSEVEIWIPIK 157
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
21-100 1.08e-11

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 59.87  E-value: 1.08e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551    21 PFNLQELSDYVGLSPYHLDQSFKMIVGQSPEEYARARKMTIAANDVVNGASRLMDVAKKYRYANSNDFANDFSDFHGISP 100
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
14-100 1.56e-11

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 63.26  E-value: 1.56e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551  14 IEDRLLEPFNLQELSDYVGLSPYHLDQSFKMIVGQSPEEYARARKMTIAANDVVNGASRLMDVAKKYRYANSNDFANDFS 93
Cdd:COG2207  161 LLLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFK 240


                 ....*..
gi 488421551  94 DFHGISP 100
Cdd:COG2207  241 KRFGVTP 247
AraC_E_bind smart00871
Bacterial transcription activator, effector binding domain; This domain is found in the ...
 130-281 1.89e-09

Bacterial transcription activator, effector binding domain; This domain is found in the probable effector binding domain of a number of different bacterial transcription activators.and is also present in some DNA gyrase inhibitors. The absence of a HTH motif in the DNA gyrase inhibitors is thought to indicate the fact that these do not bind DNA.


Pssm-ID: 214874 [Multi-domain]  Cd Length: 158  Bit Score: 55.56  E-value: 1.89e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551   130 YRLQETDDISLVGYSRFIPTKQLsnpfNIPDFLEDLLVDGYIKELKRY-NDTSPYELFVVSCPLEQ--GLEIFVGVPSER 206
Cdd:smart00871   2 VRIVELPAFKVAGLRHRGPNEDE----KIPELWQRLIQWAKELGLLPVgNSGEPYGVYYDDPDDTPdgEFRYDAGVEVSD 77

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551   207 Y---PSHLESRFLPGRHYALFNLQGEIDYATNEAWYYIESSLQLTLPYER--NSLYVEIYPIDISFNDP-FTKIQLWLPI 280
Cdd:smart00871  78 EveaPEGVETKTIPAGKYAVFTHKGGSYDEIQEAWEAIYGEWLPNSGYELrdAGPDFEVYLNDPPDTDPeELVTEIYIPV 157


                   .
gi 488421551   281 K 281
Cdd:smart00871 158 K 158
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 7-62 2.94e-09

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: 56.99  E-value: 2.94e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 488421551   7 IQQAIVYIEDRLLEPFNLQELSDYVGLSPYHLDQSFKMIVGQSPEEYARARKMTIA 62
Cdd:COG2169   86 VARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRA 141
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
7-100 8.84e-09

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 52.80  E-value: 8.84e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551   7 IQQAIVYIEDRLLEPFNLQELSDYVGLSPYHLDQSFKMIVGQSPEEYARARKMTIAANDVVNGASRLMDVAKKYRYANSN 86
Cdd:PRK11511  11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFESQQ 90

                         90
                 ....*....|....
gi 488421551  87 DFANDFSDFHGISP 100
Cdd:PRK11511  91 TLTRTFKNYFDVPP 104
HTH_18 pfam12833
Helix-turn-helix domain;
27-100 4.59e-08

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 49.51  E-value: 4.59e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 488421551   27 LSDYVGLSPYHLDQSFKMIVGQSPEEYARARKMTIAANDVVNGASR-LMDVAKKYRYANSNDFANDFSDFHGISP 100
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDTGLsVAEIALALGFSDASHFSRAFRRLFGLTP 75
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
7-92 7.23e-07

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 46.84  E-value: 7.23e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551   7 IQQAIVYIEDRLLEPFNLQELSDYVGLSPYHLDQSFKMIVGQSPEEYARARKMTIAANDVVNGASRLMDVAKKYRYANSN 86
Cdd:PRK10219   7 IQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQ 86


                 ....*.
gi 488421551  87 DFANDF 92
Cdd:PRK10219  87 TFSRVF 92
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 7-102 1.56e-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: 45.53  E-value: 1.56e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551   7 IQQAIVYIEDRLLEPFNLQELSDYVGLSPYHLDQSFKMIVGQSPEEY------ARARKMtiaandVVNGASRLMDVAkkY 80
Cdd:COG4977  212 LARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYlqrlrlERARRL------LETTDLSIEEIA--A 283

                         90       100
                 ....*....|....*....|....
gi 488421551  81 R--YANSNDFANDFSDFHGISPIQ 102
Cdd:COG4977  284 AcgFGSASHFRRAFRRRFGVSPSA 307
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
1-92 3.96e-04

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 41.15  E-value: 3.96e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488421551   1 MDVIKQIQQAIVYIEDRLLEPFNLQELSDYVGLSPYHLDQSFKMIVGQSPEEYARARKMTIAANdvvngASRL-----MD 75
Cdd:PRK15121   1 MDQAGIIRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAV-----ALRLtsrpiLD 75

                         90
                 ....*....|....*..
gi 488421551  76 VAKKYRYANSNDFANDF 92
Cdd:PRK15121  76 IALQYRFDSQQTFTRAF 92
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
17-59 4.07e-04

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


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 41.32  E-value: 4.07e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 488421551  17 RLLE---PFNLQELSDYVGLSPYHLDQSFKMIVGQSPEEY---ARARKM 59
Cdd:PRK15435  92 RLLEqetPVTLEALADQVAMSPFHLHRLFKATTGMTPKAWqqaWRARRL 140
PRK15340 PRK15340
AraC family transcriptional regulator InvF;
24-100 1.78e-03

AraC family transcriptional regulator InvF;


Pssm-ID: 185240  Cd Length: 216  Bit Score: 38.81  E-value: 1.78e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 488421551  24 LQELSDYVGLSPYHLDQSFKMIVGQSPEEYARARKMTIAANDVVNGASRLMDVAKKYRYANSNDFANDFSDFHGISP 100
Cdd:PRK15340 128 MRMLGEDYGVSYTHFRRLCSRALGGKAKSELRNWRMAQSLLNSVEGHENITQLAVNHGYSSPSHFSSEIKELIGVSP 204
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 14-53 3.46e-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: 34.82  E-value: 3.46e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 488421551   14 IEDRLLEPFNLQELSDYVGLSPYHLDQSFKMIVGQSPEEY 53
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQY 40
 
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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