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Conserved domains on  [gi|1437745537|emb|SUC09579|]
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AraC family transcriptional regulator [Proteus mirabilis]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RobA_TF super family cl41266
MDR efflux pump AcrAB transcriptional activator RobA; The original characterization of RobA as ...
 21-121 2.17e-36

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.


The actual alignment was detected with superfamily member NF012228:

Pssm-ID: 467958 [Multi-domain]  Cd Length: 286  Bit Score: 125.40  E-value: 2.17e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  21 IVKETIDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKYQFDSL 100
Cdd:NF012228    4 IIRDLLVWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGQAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFDSQ 83

                          90       100
                  ....*....|....*....|.
gi 1437745537 101 QSYHRAFKRMFKVSPNQYRKN 121
Cdd:NF012228   84 QTFTRAFKKQFNQTPALYRRS 104
 
Name Accession Description Interval E-value
RobA_TF NF012228
MDR efflux pump AcrAB transcriptional activator RobA; The original characterization of RobA as ...
 21-121 2.17e-36

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: 125.40  E-value: 2.17e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  21 IVKETIDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKYQFDSL 100
Cdd:NF012228    4 IIRDLLVWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGQAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFDSQ 83

                          90       100
                  ....*....|....*....|.
gi 1437745537 101 QSYHRAFKRMFKVSPNQYRKN 121
Cdd:NF012228   84 QTFTRAFKKQFNQTPALYRRS 104
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
21-121 2.43e-35

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 122.81  E-value: 2.43e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  21 IVKETIDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKYQFDSL 100
Cdd:PRK15121    6 IIRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFDSQ 85

                          90       100
                  ....*....|....*....|.
gi 1437745537 101 QSYHRAFKRMFKVSPNQYRKN 121
Cdd:PRK15121   86 QTFTRAFKKQFAQTPALYRRS 106
ramA_TF NF012144
RamA family antibiotic efflux transcriptional regulator;
16-120 1.23e-30

RamA family antibiotic efflux transcriptional regulator;


Pssm-ID: 411085 [Multi-domain]  Cd Length: 108  Bit Score: 105.56  E-value: 1.23e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  16 TLHEIIVKETIDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKY 95
Cdd:NF012144    1 TISAQVIDTIVEWIDDNLHQPLRIDDIARHAGYSKWHLQRLFLQYKGESLGRYIRERKLLLAARDLRDTDQKVYDICLKY 80

                          90       100
                  ....*....|....*....|....*
gi 1437745537  96 QFDSLQSYHRAFKRMFKVSPNQYRK 120
Cdd:NF012144   81 GFDSQQTFTRIFTRTFNQPPGAYRK 105
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
36-119 3.26e-27

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 96.08  E-value: 3.26e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537   36 PLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKYQFDSLQSYHRAFKRMFKVSP 115
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 1437745537  116 NQYR 119
Cdd:smart00342  81 SEYR 84
MarA_TF NF012198
MDR efflux pump AcrAB transcriptional activator MarA;
20-119 1.32e-25

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 411088  Cd Length: 124  Bit Score: 93.28  E-value: 1.32e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  20 IIVKETIDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKYQFDS 99
Cdd:NF012198    9 ITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFES 88

                          90       100
                  ....*....|....*....|
gi 1437745537 100 LQSYHRAFKRMFKVSPNQYR 119
Cdd:NF012198   89 QQTLTRTFKNYFDVPPHKYR 108
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
37-125 4.26e-23

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 90.22  E-value: 4.26e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  37 LNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKYQFDSLQSYHRAFKRMFKVSPN 116
Cdd:COG2207   169 LTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPS 248


                  ....*....
gi 1437745537 117 QYRKNIRKL 125
Cdd:COG2207   249 EYRKRLRAR 257
HTH_18 pfam12833
Helix-turn-helix domain;
42-121 4.87e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 82.64  E-value: 4.87e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  42 VSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLI-TSDKPVIDIAIKYQFDSLQSYHRAFKRMFKVSPNQYRK 120
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 1437745537 121 N 121
Cdd:pfam12833  81 R 81
 
Name Accession Description Interval E-value
RobA_TF NF012228
MDR efflux pump AcrAB transcriptional activator RobA; The original characterization of RobA as ...
 21-121 2.17e-36

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: 125.40  E-value: 2.17e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  21 IVKETIDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKYQFDSL 100
Cdd:NF012228    4 IIRDLLVWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGQAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFDSQ 83

                          90       100
                  ....*....|....*....|.
gi 1437745537 101 QSYHRAFKRMFKVSPNQYRKN 121
Cdd:NF012228   84 QTFTRAFKKQFNQTPALYRRS 104
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
21-121 2.43e-35

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 122.81  E-value: 2.43e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  21 IVKETIDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKYQFDSL 100
Cdd:PRK15121    6 IIRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFDSQ 85

                          90       100
                  ....*....|....*....|.
gi 1437745537 101 QSYHRAFKRMFKVSPNQYRKN 121
Cdd:PRK15121   86 QTFTRAFKKQFAQTPALYRRS 106
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
17-122 1.12e-30

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 105.78  E-value: 1.12e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  17 LHEIIVKETIDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKYQ 96
Cdd:PRK10219    2 SHQKIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLG 81

                          90       100
                  ....*....|....*....|....*.
gi 1437745537  97 FDSLQSYHRAFKRMFKVSPNQYRKNI 122
Cdd:PRK10219   82 YVSQQTFSRVFRRQFDRTPSDYRHRL 107
ramA_TF NF012144
RamA family antibiotic efflux transcriptional regulator;
16-120 1.23e-30

RamA family antibiotic efflux transcriptional regulator;


Pssm-ID: 411085 [Multi-domain]  Cd Length: 108  Bit Score: 105.56  E-value: 1.23e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  16 TLHEIIVKETIDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKY 95
Cdd:NF012144    1 TISAQVIDTIVEWIDDNLHQPLRIDDIARHAGYSKWHLQRLFLQYKGESLGRYIRERKLLLAARDLRDTDQKVYDICLKY 80

                          90       100
                  ....*....|....*....|....*
gi 1437745537  96 QFDSLQSYHRAFKRMFKVSPNQYRK 120
Cdd:NF012144   81 GFDSQQTFTRIFTRTFNQPPGAYRK 105
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
20-119 1.07e-27

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 98.64  E-value: 1.07e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  20 IIVKETIDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKYQFDS 99
Cdd:PRK11511    9 ITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFES 88

                          90       100
                  ....*....|....*....|
gi 1437745537 100 LQSYHRAFKRMFKVSPNQYR 119
Cdd:PRK11511   89 QQTLTRTFKNYFDVPPHKYR 108
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
36-119 3.26e-27

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 96.08  E-value: 3.26e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537   36 PLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKYQFDSLQSYHRAFKRMFKVSP 115
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 1437745537  116 NQYR 119
Cdd:smart00342  81 SEYR 84
MarA_TF NF012198
MDR efflux pump AcrAB transcriptional activator MarA;
20-119 1.32e-25

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 411088  Cd Length: 124  Bit Score: 93.28  E-value: 1.32e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  20 IIVKETIDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKYQFDS 99
Cdd:NF012198    9 ITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFES 88

                          90       100
                  ....*....|....*....|
gi 1437745537 100 LQSYHRAFKRMFKVSPNQYR 119
Cdd:NF012198   89 QQTLTRTFKNYFDVPPHKYR 108
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
37-125 4.26e-23

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 90.22  E-value: 4.26e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  37 LNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKYQFDSLQSYHRAFKRMFKVSPN 116
Cdd:COG2207   169 LTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPS 248


                  ....*....
gi 1437745537 117 QYRKNIRKL 125
Cdd:COG2207   249 EYRKRLRAR 257
HTH_18 pfam12833
Helix-turn-helix domain;
42-121 4.87e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 82.64  E-value: 4.87e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  42 VSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLI-TSDKPVIDIAIKYQFDSLQSYHRAFKRMFKVSPNQYRK 120
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 1437745537 121 N 121
Cdd:pfam12833  81 R 81
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 18-123 4.27e-20

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: 83.56  E-value: 4.27e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  18 HEIIVKETIDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKsALDLITSDKPVIDIAIKYQF 97
Cdd:COG2169    82 RADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLR-ARQLLQTGLSVTDAAYAAGF 160

                          90       100
                  ....*....|....*....|....*.
gi 1437745537  98 DSLQSYHRAFKRMFKVSPNQYRKNIR 123
Cdd:COG2169   161 GSLSRFYEAFKKLLGMTPSAYRRGGA 186
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 22-123 1.78e-19

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: 81.36  E-value: 1.78e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  22 VKETIDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKYQFDSLQ 101
Cdd:COG4977   212 LARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSAS 291

                          90       100
                  ....*....|....*....|..
gi 1437745537 102 SYHRAFKRMFKVSPNQYRKNIR 123
Cdd:COG4977   292 HFRRAFRRRFGVSPSAYRRRFR 313
ftrA PRK09393
transcriptional activator FtrA; Provisional
 26-123 3.98e-11

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 58.44  E-value: 3.98e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  26 IDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKsALDLITSDK-PVIDIAIKYQFDSLQSYH 104
Cdd:PRK09393  224 IDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLAR-ARDLLESSAlSIDQIAERAGFGSEESLR 302

                          90
                  ....*....|....*....
gi 1437745537 105 RAFKRMFKVSPNQYRKNIR 123
Cdd:PRK09393  303 HHFRRRAATSPAAYRKRFG 321
PRK10371 PRK10371
transcriptional regulator MelR;
22-120 4.68e-11

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 58.29  E-value: 4.68e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  22 VKETIDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKYQFDSLQ 101
Cdd:PRK10371  193 VSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDIALTAGFRSSS 272

                          90
                  ....*....|....*....
gi 1437745537 102 SYHRAFKRMFKVSPNQYRK 120
Cdd:PRK10371  273 RFYSTFGKYVGMSPQQYRK 291
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 46-120 6.99e-10

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 55.04  E-value: 6.99e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1437745537  46 VGYTKWHFQRIFKQyTGFTISRYIRMRRLSKSALDL--ITSDKPVIDIAIKYQFDSLQSYHRAFKRMFKVSPNQYRK 120
Cdd:PRK09685  224 LGISVRSLYRLFAE-QGLVVAQYIRNRRLDRCADDLrpAADDEKITSIAYKWGFSDSSHFSTAFKQRFGVSPGEYRR 299
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 29-70 6.69e-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: 6.69e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1437745537  29 IENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIR 70
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYRH 42
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
26-121 7.94e-07

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 46.21  E-value: 7.94e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  26 IDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKYQFDSLQSYHR 105
Cdd:PRK13503  177 LAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFST 256

                          90
                  ....*....|....*.
gi 1437745537 106 AFKRMFKVSPNQYRKN 121
Cdd:PRK13503  257 LFRREFSWSPRDIRQG 272
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
29-120 3.64e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 44.51  E-value: 3.64e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  29 IENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDIAIKYQFDSLQSYHRAFK 108
Cdd:PRK13501  185 LQQSLGAYFDMADFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFT 264

                          90
                  ....*....|..
gi 1437745537 109 RMFKVSPNQYRK 120
Cdd:PRK13501  265 REAGMTPRDYRQ 276
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
36-120 4.92e-06

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


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 44.01  E-value: 4.92e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  36 PLNITIVSQKVGYTKWHFQRIFKQYTGFTISRY---IRMRRLsKSALdliTSDKPVIDIAIKYQFDSLQSYHRAFKRMFK 112
Cdd:PRK15435   99 PVTLEALADQVAMSPFHLHRLFKATTGMTPKAWqqaWRARRL-REAL---AKGESVTTSILNAGFPDSSSYYRKADETLG 174


                  ....*...
gi 1437745537 113 VSPNQYRK 120
Cdd:PRK15435  175 MTAKQFRH 182
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
12-125 7.50e-06

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 43.42  E-value: 7.50e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537  12 NTHHTLHEIIVKETIDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDKPVIDI 91
Cdd:PRK10572  175 ESLHPPMDPRVREACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATI 254

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1437745537  92 AIKYQFDSLQSYHRAFKRMFKVSPNQYRKNIRKL 125
Cdd:PRK10572  255 GRNVGYDDQLYFSRVFKKCTGASPSEFRARCEEK 288
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
7-119 1.06e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 43.12  E-value: 1.06e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537   7 KYNKRNTHHTLHEIIVKETIDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSDK 86
Cdd:PRK13502  163 RYATDDLPATSRETLLDKLITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPL 242

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1437745537  87 PVIDIAIKYQFDSLQSYHRAFKRMFKVSPNQYR 119
Cdd:PRK13502  243 MISEISMQCGFEDSNYFSVVFTRETGMTPSQWR 275
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
6-119 5.73e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 38.16  E-value: 5.73e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1437745537   6 NKYNKRNTHHTLHEIIVKETIDWIENNLCNPLNITIVSQKVGYTKWHFQRIFKQYTGFTISRYIRMRRLSKSALDLITSD 85
Cdd:PRK13500  192 HRYTSDSLPPTSSETLLDKLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSR 271

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1437745537  86 KPVIDIAIKYQFDSLQSYHRAFKRMFKVSPNQYR 119
Cdd:PRK13500  272 LLISDISTECGFEDSNYFSVVFTRETGMTPSQWR 305
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 82-120 7.46e-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: 32.51  E-value: 7.46e-03
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 1437745537  82 ITSDKPVIDIAIKYQFdSLQSYHRAFKRMFKVSPNQYRK 120
Cdd:pfam00165   5 LSTNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 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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