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Conserved domains on  [gi|16131888|ref|NP_418486|]
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DNA-binding transcriptional dual regulator SoxS [Escherichia coli str. K-12 substr. MG1655]

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 3.62e-67

superoxide response transcriptional regulator SoxS;


:

Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 197.07  E-value: 3.62e-67
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888    1 MSHQKIIQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDL 80
Cdd:PRK10219   1 MSHQKIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDL 80

                         90       100
                 ....*....|....*....|....*..
gi 16131888   81 GYVSQQTFSRVFRRQFDRTPSDYRHRL 107
Cdd:PRK10219  81 GYVSQQTFSRVFRRQFDRTPSDYRHRL 107
 
Name Accession Description Interval E-value
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
1-107 3.62e-67

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 197.07  E-value: 3.62e-67
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888    1 MSHQKIIQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDL 80
Cdd:PRK10219   1 MSHQKIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDL 80

                         90       100
                 ....*....|....*....|....*..
gi 16131888   81 GYVSQQTFSRVFRRQFDRTPSDYRHRL 107
Cdd:PRK10219  81 GYVSQQTFSRVFRRQFDRTPSDYRHRL 107
RobA_TF NF012228
MDR efflux pump AcrAB transcriptional activator RobA; The original characterization of RobA as ...
 6-105 7.47e-51

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: 161.61  E-value: 7.47e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888    6 IIQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQ 85
Cdd:NF012228   4 IIRDLLVWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGQAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFDSQ 83

                         90       100
                 ....*....|....*....|
gi 16131888   86 QTFSRVFRRQFDRTPSDYRH 105
Cdd:NF012228  84 QTFTRAFKKQFNQTPALYRR 103
ramA_TF NF012144
RamA family antibiotic efflux transcriptional regulator;
5-105 3.63e-34

RamA family antibiotic efflux transcriptional regulator;


Pssm-ID: 411085 [Multi-domain]  Cd Length: 108  Bit Score: 113.65  E-value: 3.63e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888    5 KIIQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVS 84
Cdd:NF012144   5 QVIDTIVEWIDDNLHQPLRIDDIARHAGYSKWHLQRLFLQYKGESLGRYIRERKLLLAARDLRDTDQKVYDICLKYGFDS 84

                         90       100
                 ....*....|....*....|.
gi 16131888   85 QQTFSRVFRRQFDRTPSDYRH 105
Cdd:NF012144  85 QQTFTRIFTRTFNQPPGAYRK 105
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
21-104 5.47e-31

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 104.94  E-value: 5.47e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888     21 PLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFSRVFRRQFDRTP 100
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 16131888    101 SDYR 104
Cdd:smart00342  81 SEYR 84
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 7-106 6.21e-26

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: 97.92  E-value: 6.21e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888   7 IQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQ 86
Cdd:COG4977 212 LARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSAS 291

                        90       100
                ....*....|....*....|
gi 16131888  87 TFSRVFRRQFDRTPSDYRHR 106
Cdd:COG4977 292 HFRRAFRRRFGVSPSAYRRR 311
HTH_18 pfam12833
Helix-turn-helix domain;
27-106 1.15e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 83.79  E-value: 1.15e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888    27 VAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVEL-RTTERPIFDIAMDLGYVSQQTFSRVFRRQFDRTPSDYRH 105
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 16131888   106 R 106
Cdd:pfam12833  81 R 81
 
Name Accession Description Interval E-value
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
1-107 3.62e-67

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 197.07  E-value: 3.62e-67
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888    1 MSHQKIIQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDL 80
Cdd:PRK10219   1 MSHQKIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDL 80

                         90       100
                 ....*....|....*....|....*..
gi 16131888   81 GYVSQQTFSRVFRRQFDRTPSDYRHRL 107
Cdd:PRK10219  81 GYVSQQTFSRVFRRQFDRTPSDYRHRL 107
RobA_TF NF012228
MDR efflux pump AcrAB transcriptional activator RobA; The original characterization of RobA as ...
 6-105 7.47e-51

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: 161.61  E-value: 7.47e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888    6 IIQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQ 85
Cdd:NF012228   4 IIRDLLVWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGQAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFDSQ 83

                         90       100
                 ....*....|....*....|
gi 16131888   86 QTFSRVFRRQFDRTPSDYRH 105
Cdd:NF012228  84 QTFTRAFKKQFNQTPALYRR 103
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
1-104 3.86e-47

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 152.08  E-value: 3.86e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888    1 MSHQKIIQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDL 80
Cdd:PRK15121   1 MDQAGIIRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALRLTSRPILDIALQY 80

                         90       100
                 ....*....|....*....|....
gi 16131888   81 GYVSQQTFSRVFRRQFDRTPSDYR 104
Cdd:PRK15121  81 RFDSQQTFTRAFKKQFAQTPALYR 104
ramA_TF NF012144
RamA family antibiotic efflux transcriptional regulator;
5-105 3.63e-34

RamA family antibiotic efflux transcriptional regulator;


Pssm-ID: 411085 [Multi-domain]  Cd Length: 108  Bit Score: 113.65  E-value: 3.63e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888    5 KIIQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVS 84
Cdd:NF012144   5 QVIDTIVEWIDDNLHQPLRIDDIARHAGYSKWHLQRLFLQYKGESLGRYIRERKLLLAARDLRDTDQKVYDICLKYGFDS 84

                         90       100
                 ....*....|....*....|.
gi 16131888   85 QQTFSRVFRRQFDRTPSDYRH 105
Cdd:NF012144  85 QQTFTRIFTRTFNQPPGAYRK 105
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
21-104 5.47e-31

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 104.94  E-value: 5.47e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888     21 PLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFSRVFRRQFDRTP 100
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 16131888    101 SDYR 104
Cdd:smart00342  81 SEYR 84
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
7-104 1.79e-27

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 97.48  E-value: 1.79e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888    7 IQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQ 86
Cdd:PRK11511  11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFESQQ 90

                         90
                 ....*....|....*...
gi 16131888   87 TFSRVFRRQFDRTPSDYR 104
Cdd:PRK11511  91 TLTRTFKNYFDVPPHKYR 108
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 7-106 6.21e-26

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: 97.92  E-value: 6.21e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888   7 IQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQ 86
Cdd:COG4977 212 LARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSAS 291

                        90       100
                ....*....|....*....|
gi 16131888  87 TFSRVFRRQFDRTPSDYRHR 106
Cdd:COG4977 292 HFRRAFRRRFGVSPSAYRRR 311
HTH_18 pfam12833
Helix-turn-helix domain;
27-106 1.15e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 83.79  E-value: 1.15e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888    27 VAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVEL-RTTERPIFDIAMDLGYVSQQTFSRVFRRQFDRTPSDYRH 105
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 16131888   106 R 106
Cdd:pfam12833  81 R 81
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
2-107 1.31e-22

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 88.30  E-value: 1.31e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888   2 SHQKIIQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLG 81
Cdd:COG2207 149 LLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELG 228

                        90       100
                ....*....|....*....|....*.
gi 16131888  82 YVSQQTFSRVFRRQFDRTPSDYRHRL 107
Cdd:COG2207 229 FSSQSHFSRAFKKRFGVTPSEYRKRL 254
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 3-106 9.52e-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: 78.94  E-value: 9.52e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888   3 HQKIIQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTErPIFDIAMDLGY 82
Cdd:COG2169  82 RADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQTGL-SVTDAAYAAGF 160

                        90       100
                ....*....|....*....|....
gi 16131888  83 VSQQTFSRVFRRQFDRTPSDYRHR 106
Cdd:COG2169 161 GSLSRFYEAFKKLLGMTPSAYRRG 184
ftrA PRK09393
transcriptional activator FtrA; Provisional
 10-106 1.68e-14

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 67.30  E-value: 1.68e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888   10 LIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFS 89
Cdd:PRK09393 223 LIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGSEESLR 302

                         90
                 ....*....|....*..
gi 16131888   90 RVFRRQFDRTPSDYRHR 106
Cdd:PRK09393 303 HHFRRRAATSPAAYRKR 319
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 2-107 4.42e-13

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 63.13  E-value: 4.42e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888    2 SHQKIIQDLIAWIDEHIDQP-LNIDVVAKKSGYSKWYLQRMFR----TVTHqtlgdYIRQRRLLLAAVELRT--TERPIF 74
Cdd:PRK09685 194 RRERQFQKVVALIDQSIQEEiLRPEWIAGELGISVRSLYRLFAeqglVVAQ-----YIRNRRLDRCADDLRPaaDDEKIT 268

                         90       100       110
                 ....*....|....*....|....*....|...
gi 16131888   75 DIAMDLGYVSQQTFSRVFRRQFDRTPSDYRHRL 107
Cdd:PRK09685 269 SIAYKWGFSDSSHFSTAFKQRFGVSPGEYRRKF 301
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
10-107 1.42e-11

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 58.76  E-value: 1.42e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888   10 LIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFS 89
Cdd:PRK13501 181 IMSALQQSLGAYFDMADFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFS 260

                         90
                 ....*....|....*...
gi 16131888   90 RVFRRQFDRTPSDYRHRL 107
Cdd:PRK13501 261 AVFTREAGMTPRDYRQRF 278
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
2-105 9.25e-11

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 56.60  E-value: 9.25e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888    2 SHQKIIQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLG 81
Cdd:PRK13502 173 SRETLLDKLITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCG 252

                         90       100
                 ....*....|....*....|....
gi 16131888   82 YVSQQTFSRVFRRQFDRTPSDYRH 105
Cdd:PRK13502 253 FEDSNYFSVVFTRETGMTPSQWRH 276
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
7-105 2.57e-10

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 55.45  E-value: 2.57e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888    7 IQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQ 86
Cdd:PRK13503 173 LNQLLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSN 252

                         90
                 ....*....|....*....
gi 16131888   87 TFSRVFRRQFDRTPSDYRH 105
Cdd:PRK13503 253 HFSTLFRREFSWSPRDIRQ 271
PRK10371 PRK10371
transcriptional regulator MelR;
4-104 2.61e-10

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 55.60  E-value: 2.61e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888    4 QKIIQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYV 83
Cdd:PRK10371 190 QFYVSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDIALTAGFR 269

                         90       100
                 ....*....|....*....|.
gi 16131888   84 SQQTFSRVFRRQFDRTPSDYR 104
Cdd:PRK10371 270 SSSRFYSTFGKYVGMSPQQYR 290
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
2-106 8.62e-10

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 53.82  E-value: 8.62e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888    2 SHQKI----IQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIA 77
Cdd:PRK10572 176 SLHPPmdprVREACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIG 255

                         90       100
                 ....*....|....*....|....*....
gi 16131888   78 MDLGYVSQQTFSRVFRRQFDRTPSDYRHR 106
Cdd:PRK10572 256 RNVGYDDQLYFSRVFKKCTGASPSEFRAR 284
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
2-105 1.92e-09

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 53.18  E-value: 1.92e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131888    2 SHQKIIQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLG 81
Cdd:PRK13500 203 SSETLLDKLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTECG 282

                         90       100
                 ....*....|....*....|....
gi 16131888   82 YVSQQTFSRVFRRQFDRTPSDYRH 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 1.15e-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: 44.45  E-value: 1.15e-07
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 16131888    68 TTERPIFDIAMDLGYvSQQTFSRVFRRQFDRTPSDYRH 105
Cdd:pfam00165   6 STNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 42
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 31-107 8.59e-07

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 45.52  E-value: 8.59e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 16131888   31 SGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFSRVFRRQFDRTPSDYRHRL 107
Cdd:PRK10296 198 SGKSQEYLTRATRRYYGKTPMQIINEIRINFAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYRKKL 274
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 58-103 3.78e-03

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 34.97  E-value: 3.78e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 16131888   58 RLLLAAVELRTTERPIFDIAMDLGYVSQQTFSRVFRRQFDRTPSDY 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 7.18e-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: 32.13  E-value: 7.18e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 16131888    14 IDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIR 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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