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Conserved domains on  [gi|839746154|gb|KMI19272|]
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regulatory protein SoxS [Klebsiella variicola]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 11484615)

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
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
1-107 3.24e-69

superoxide response transcriptional regulator SoxS;


:

Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 202.46  E-value: 3.24e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   1 MSHQDIIQTLIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDL 80
Cdd:PRK10219   1 MSHQKIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDL 80

                         90       100
                 ....*....|....*....|....*..
gi 839746154  81 GYVSQQTFSRVFRREFDRTPSDYRHQI 107
Cdd:PRK10219  81 GYVSQQTFSRVFRRQFDRTPSDYRHRL 107
 
Name Accession Description Interval E-value
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
1-107 3.24e-69

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 202.46  E-value: 3.24e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   1 MSHQDIIQTLIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDL 80
Cdd:PRK10219   1 MSHQKIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDL 80

                         90       100
                 ....*....|....*....|....*..
gi 839746154  81 GYVSQQTFSRVFRREFDRTPSDYRHQI 107
Cdd:PRK10219  81 GYVSQQTFSRVFRRQFDRTPSDYRHRL 107
RobA_TF NF012228
MDR efflux pump AcrAB transcriptional activator RobA; The original characterization of RobA as ...
 6-105 1.96e-45

MDR efflux pump AcrAB transcriptional activator RobA; The original characterization of RobA as a Right side Origin of replication Binding protein A (robA) may be misleading. Characterizations in large numbers of papers since then treat RobA as a transcriptional activator of the AcrAB antibiotic efflux pump.


Pssm-ID: 467958 [Multi-domain]  Cd Length: 286  Bit Score: 147.74  E-value: 1.96e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   6 IIQTLIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDLGYVSQ 85
Cdd:NF012228   4 IIRDLLVWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGQAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFDSQ 83

                         90       100
                 ....*....|....*....|
gi 839746154  86 QTFSRVFRREFDRTPSDYRH 105
Cdd:NF012228  84 QTFTRAFKKQFNQTPALYRR 103
ramA_TF NF012144
RamA family antibiotic efflux transcriptional regulator;
6-106 2.73e-36

RamA family antibiotic efflux transcriptional regulator;


Pssm-ID: 411085 [Multi-domain]  Cd Length: 108  Bit Score: 119.04  E-value: 2.73e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   6 IIQTLIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDLGYVSQ 85
Cdd:NF012144   6 VIDTIVEWIDDNLHQPLRIDDIARHAGYSKWHLQRLFLQYKGESLGRYIRERKLLLAARDLRDTDQKVYDICLKYGFDSQ 85

                         90       100
                 ....*....|....*....|.
gi 839746154  86 QTFSRVFRREFDRTPSDYRHQ 106
Cdd:NF012144  86 QTFTRIFTRTFNQPPGAYRKE 106
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
21-104 2.88e-30

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 103.02  E-value: 2.88e-30
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154    21 PLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDLGYVSQQTFSRVFRREFDRTP 100
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 839746154   101 SDYR 104
Cdd:smart00342  81 SEYR 84
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 3-109 1.58e-25

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: 96.77  E-value: 1.58e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   3 HQDIIQTLIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDLGY 82
Cdd:COG4977  208 RDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGF 287

                         90       100
                 ....*....|....*....|....*..
gi 839746154  83 VSQQTFSRVFRREFDRTPSDYRHQISA 109
Cdd:COG4977  288 GSASHFRRAFRRRFGVSPSAYRRRFRA 314
HTH_18 pfam12833
Helix-turn-helix domain;
27-106 1.59e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 83.41  E-value: 1.59e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   27 VARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEAL-RTTQRPIFDIAMDLGYVSQQTFSRVFRREFDRTPSDYRH 105
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 839746154  106 Q 106
Cdd:pfam12833  81 R 81
 
Name Accession Description Interval E-value
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
1-107 3.24e-69

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 202.46  E-value: 3.24e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   1 MSHQDIIQTLIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDL 80
Cdd:PRK10219   1 MSHQKIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDL 80

                         90       100
                 ....*....|....*....|....*..
gi 839746154  81 GYVSQQTFSRVFRREFDRTPSDYRHQI 107
Cdd:PRK10219  81 GYVSQQTFSRVFRRQFDRTPSDYRHRL 107
RobA_TF NF012228
MDR efflux pump AcrAB transcriptional activator RobA; The original characterization of RobA as ...
 6-105 1.96e-45

MDR efflux pump AcrAB transcriptional activator RobA; The original characterization of RobA as a Right side Origin of replication Binding protein A (robA) may be misleading. Characterizations in large numbers of papers since then treat RobA as a transcriptional activator of the AcrAB antibiotic efflux pump.


Pssm-ID: 467958 [Multi-domain]  Cd Length: 286  Bit Score: 147.74  E-value: 1.96e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   6 IIQTLIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDLGYVSQ 85
Cdd:NF012228   4 IIRDLLVWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGQAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFDSQ 83

                         90       100
                 ....*....|....*....|
gi 839746154  86 QTFSRVFRREFDRTPSDYRH 105
Cdd:NF012228  84 QTFTRAFKKQFNQTPALYRR 103
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
1-104 9.85e-43

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 140.91  E-value: 9.85e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   1 MSHQDIIQTLIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDL 80
Cdd:PRK15121   1 MDQAGIIRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALRLTSRPILDIALQY 80

                         90       100
                 ....*....|....*....|....
gi 839746154  81 GYVSQQTFSRVFRREFDRTPSDYR 104
Cdd:PRK15121  81 RFDSQQTFTRAFKKQFAQTPALYR 104
ramA_TF NF012144
RamA family antibiotic efflux transcriptional regulator;
6-106 2.73e-36

RamA family antibiotic efflux transcriptional regulator;


Pssm-ID: 411085 [Multi-domain]  Cd Length: 108  Bit Score: 119.04  E-value: 2.73e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   6 IIQTLIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDLGYVSQ 85
Cdd:NF012144   6 VIDTIVEWIDDNLHQPLRIDDIARHAGYSKWHLQRLFLQYKGESLGRYIRERKLLLAARDLRDTDQKVYDICLKYGFDSQ 85

                         90       100
                 ....*....|....*....|.
gi 839746154  86 QTFSRVFRREFDRTPSDYRHQ 106
Cdd:NF012144  86 QTFTRIFTRTFNQPPGAYRKE 106
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
21-104 2.88e-30

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 103.02  E-value: 2.88e-30
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154    21 PLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDLGYVSQQTFSRVFRREFDRTP 100
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 839746154   101 SDYR 104
Cdd:smart00342  81 SEYR 84
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
7-104 1.09e-26

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 95.55  E-value: 1.09e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   7 IQTLIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDLGYVSQQ 86
Cdd:PRK11511  11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFESQQ 90

                         90
                 ....*....|....*...
gi 839746154  87 TFSRVFRREFDRTPSDYR 104
Cdd:PRK11511  91 TLTRTFKNYFDVPPHKYR 108
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 3-109 1.58e-25

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: 96.77  E-value: 1.58e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   3 HQDIIQTLIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDLGY 82
Cdd:COG4977  208 RDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGF 287

                         90       100
                 ....*....|....*....|....*..
gi 839746154  83 VSQQTFSRVFRREFDRTPSDYRHQISA 109
Cdd:COG4977  288 GSASHFRRAFRRRFGVSPSAYRRRFRA 314
HTH_18 pfam12833
Helix-turn-helix domain;
27-106 1.59e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 83.41  E-value: 1.59e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   27 VARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEAL-RTTQRPIFDIAMDLGYVSQQTFSRVFRREFDRTPSDYRH 105
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 839746154  106 Q 106
Cdd:pfam12833  81 R 81
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
10-109 3.09e-22

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 87.53  E-value: 3.09e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154  10 LIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDLGYVSQQTFS 89
Cdd:COG2207  157 LLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFS 236

                         90       100
                 ....*....|....*....|
gi 839746154  90 RVFRREFDRTPSDYRHQISA 109
Cdd:COG2207  237 RAFKKRFGVTPSEYRKRLRA 256
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 3-106 3.73e-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: 80.48  E-value: 3.73e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   3 HQDIIQTLIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQrPIFDIAMDLGY 82
Cdd:COG2169   82 RADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQTGL-SVTDAAYAAGF 160

                         90       100
                 ....*....|....*....|....
gi 839746154  83 VSQQTFSRVFRREFDRTPSDYRHQ 106
Cdd:COG2169  161 GSLSRFYEAFKKLLGMTPSAYRRG 184
ftrA PRK09393
transcriptional activator FtrA; Provisional
 10-109 3.68e-15

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 69.22  E-value: 3.68e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154  10 LIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDLGYVSQQTFS 89
Cdd:PRK09393 223 LIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGSEESLR 302

                         90       100
                 ....*....|....*....|
gi 839746154  90 RVFRREFDRTPSDYRHQISA 109
Cdd:PRK09393 303 HHFRRRAATSPAAYRKRFGR 322
PRK10371 PRK10371
transcriptional regulator MelR;
4-104 3.10e-12

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 60.99  E-value: 3.10e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   4 QDIIQTLIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDLGYV 83
Cdd:PRK10371 190 QFYVSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDIALTAGFR 269

                         90       100
                 ....*....|....*....|.
gi 839746154  84 SQQTFSRVFRREFDRTPSDYR 104
Cdd:PRK10371 270 SSSRFYSTFGKYVGMSPQQYR 290
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 14-106 4.77e-12

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 60.43  E-value: 4.77e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154  14 IDEHIDQP-LNIDIVARKSGYSKWYLQRMFR----TVMHqtlgdYIRQRRLLLAAEALRT--TQRPIFDIAMDLGYVSQQ 86
Cdd:PRK09685 206 IDQSIQEEiLRPEWIAGELGISVRSLYRLFAeqglVVAQ-----YIRNRRLDRCADDLRPaaDDEKITSIAYKWGFSDSS 280

                         90       100
                 ....*....|....*....|
gi 839746154  87 TFSRVFRREFDRTPSDYRHQ 106
Cdd:PRK09685 281 HFSTAFKQRFGVSPGEYRRK 300
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
7-108 3.96e-10

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 54.98  E-value: 3.96e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   7 IQTLIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDLGYVSQQ 86
Cdd:PRK10572 185 VREACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQL 264

                         90       100
                 ....*....|....*....|..
gi 839746154  87 TFSRVFRREFDRTPSDYRHQIS 108
Cdd:PRK10572 265 YFSRVFKKCTGASPSEFRARCE 286
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
2-105 4.39e-10

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 54.68  E-value: 4.39e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   2 SHQDIIQTLIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDLG 81
Cdd:PRK13502 173 SRETLLDKLITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCG 252

                         90       100
                 ....*....|....*....|....
gi 839746154  82 YVSQQTFSRVFRREFDRTPSDYRH 105
Cdd:PRK13502 253 FEDSNYFSVVFTRETGMTPSQWRH 276
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
10-106 1.76e-09

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 52.98  E-value: 1.76e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154  10 LIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDLGYVSQQTFS 89
Cdd:PRK13501 181 IMSALQQSLGAYFDMADFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFS 260

                         90
                 ....*....|....*..
gi 839746154  90 RVFRREFDRTPSDYRHQ 106
Cdd:PRK13501 261 AVFTREAGMTPRDYRQR 277
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
7-106 5.29e-09

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 51.60  E-value: 5.29e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   7 IQTLIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDLGYVSQQ 86
Cdd:PRK13503 173 LNQLLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSN 252

                         90       100
                 ....*....|....*....|
gi 839746154  87 TFSRVFRREFDRTPSDYRHQ 106
Cdd:PRK13503 253 HFSTLFRREFSWSPRDIRQG 272
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
2-105 7.84e-09

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 51.26  E-value: 7.84e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839746154   2 SHQDIIQTLIEWIDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDLG 81
Cdd:PRK13500 203 SSETLLDKLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTECG 282

                         90       100
                 ....*....|....*....|....
gi 839746154  82 YVSQQTFSRVFRREFDRTPSDYRH 105
Cdd:PRK13500 283 FEDSNYFSVVFTRETGMTPSQWRH 306
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 68-105 4.92e-07

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: 4.92e-07
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 839746154   68 TTQRPIFDIAMDLGYvSQQTFSRVFRREFDRTPSDYRH 105
Cdd:pfam00165   6 STNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 42
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 29-104 7.90e-06

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 42.82  E-value: 7.90e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 839746154  29 RKSGYSKWYLQRMFRTVMHQTLGDYIRQRRLLLAAEALRTTQRPIFDIAMDLGYVSQQTFSRVFRREFDRTPSDYR 104
Cdd:PRK10296 196 RLSGKSQEYLTRATRRYYGKTPMQIINEIRINFAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYR 271
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 58-103 2.96e-03

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 35.36  E-value: 2.96e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 839746154  58 RLLLAAEALRTTQRPIFDIAMDLGYVSQQTFSRVFRREFDRTPSDY 103
Cdd:PRK15185 258 RMNQAAKLLRIGNHNVNAVALKCGYDSTSYFIQCFKKYFKTTPSTF 303
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 14-55 3.28e-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: 32.90  E-value: 3.28e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 839746154   14 IDEHIDQPLNIDIVARKSGYSKWYLQRMFRTVMHQTLGDYIR 55
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYRH 42
 
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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