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Conserved domains on  [gi|515622627|ref|WP_017055227|]
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MULTISPECIES: winged helix-turn-helix domain-containing protein [Vibrio]

Protein Classification

winged helix-turn-helix domain-containing protein( domain architecture ID 10007860)

winged helix-turn-helix (wHTH) domain-containing protein binds DNA and may function as a transcriptional regulator

CATH:  1.10.10.10
Gene Ontology:  GO:0003677
PubMed:  10473770|8831795|15808743
SCOP:  3000034

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CadC1 COG3710
DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];
2-100 1.61e-27

DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];


:

Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 101.90  E-value: 1.61e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515622627   2 IRFDPIKNRIYNDERSIKIGYRETCVLELLLKNSPEIVSKQDIISFAWGSEFIGDTSLAKCISLLRQGFVKLGIRETPIV 81
Cdd:COG3710    8 FRLDPARRELLRDGEPVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVWPGRVVSDNSLTQAISRLRKALGDDGLEPRLIR 87

                         90
                 ....*....|....*....
gi 515622627  82 TVPKVGYRLIDECVFIDSQ 100
Cdd:COG3710   88 TVPRRGYRLVAPVEVEAPE 106
 
Name Accession Description Interval E-value
CadC1 COG3710
DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];
2-100 1.61e-27

DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];


Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 101.90  E-value: 1.61e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515622627   2 IRFDPIKNRIYNDERSIKIGYRETCVLELLLKNSPEIVSKQDIISFAWGSEFIGDTSLAKCISLLRQGFVKLGIRETPIV 81
Cdd:COG3710    8 FRLDPARRELLRDGEPVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVWPGRVVSDNSLTQAISRLRKALGDDGLEPRLIR 87

                         90
                 ....*....|....*....
gi 515622627  82 TVPKVGYRLIDECVFIDSQ 100
Cdd:COG3710   88 TVPRRGYRLVAPVEVEAPE 106
trans_reg_C cd00383
DNA-binding effector domain of two-component system response regulators; Bacteria and some ...
 2-90 6.96e-17

DNA-binding effector domain of two-component system response regulators; Bacteria and some eukaryotes use two-component signal transduction systems to detect and respond to changes in the environment. The systems consists of a sensor histidine kinase and a response regulator. The former autophosphorylates a histidine residue on detecting an external stimulus. The phosphate is then transferred to an invariant aspartate residue in a highly conserved receiver domain of the response regulator. Phosphorylation activates a variable effector domain of the response regulator, which triggers the cellular response. This C-terminal effector domain belongs to the winged helix-turn-helix family of transcriptional regulators and contains DNA and RNA polymerase binding sites. Several dimers or monomers bind head to tail to small tandem repeats upstream of the genes. The RNA polymerase binding sites interact with the alpha or sigma subunit of RNA polymerase.


Pssm-ID: 294013 [Multi-domain]  Cd Length: 89  Bit Score: 73.67  E-value: 6.96e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515622627   2 IRFDPIKNRIYNDERSIKIGYRETCVLELLLKNSPEIVSKQDIISFAWGSEFIGDT-SLAKCISLLRQgfvKLGIRETP- 79
Cdd:cd00383    1 LRLDPARREVTVDGEEVELTPKEFELLELLARNPGRVVSREELLEAVWGYDYEVDDrTVDVHISRLRK---KLEDDPEPr 77

                         90
                 ....*....|..
gi 515622627  80 -IVTVPKVGYRL 90
Cdd:cd00383   78 lIKTVRGVGYRL 89
Trans_reg_C smart00862
Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...
 15-90 1.98e-13

Transcriptional regulatory protein, C terminal; This domain is almost always found associated with the response regulator receiver domain. It may play a role in DNA binding.


Pssm-ID: 214866 [Multi-domain]  Cd Length: 76  Bit Score: 63.73  E-value: 1.98e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 515622627    15 ERSIKIGYRETCVLELLLKNSPEIVSKQDIISFAWGSEFIGDT-SLAKCISLLRQgfvKLGIRETP--IVTVPKVGYRL 90
Cdd:smart00862   1 GEPIKLTPKEFRLLELLLRNPGRVVSREELLEAVWGDDEDVDDnTLDVHISRLRK---KLEDDGDPrlIETVRGVGYRL 76
Trans_reg_C pfam00486
Transcriptional regulatory protein, C terminal;
16-90 3.50e-11

Transcriptional regulatory protein, C terminal;


Pssm-ID: 425712 [Multi-domain]  Cd Length: 77  Bit Score: 57.91  E-value: 3.50e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 515622627   16 RSIKIGYRETCVLELLLKNSPEIVSKQDIISFAWGSEFIGDT-SLAKCISLLRQGFVKLGIRETPIVTVPKVGYRL 90
Cdd:pfam00486   2 EEVELTPKEFKLLELLAENPGRVVSREQLLEEVWGEDYDVDDnTVDVHISRLRKKLEDDPRDPRLIKTVRGVGYRL 77
PRK12370 PRK12370
HilA/EilA family virulence transcriptional regulator;
15-68 1.11e-04

HilA/EilA family virulence transcriptional regulator;


Pssm-ID: 237080 [Multi-domain]  Cd Length: 553  Bit Score: 43.30  E-value: 1.11e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 515622627  15 ERSIKIGYRETCVLELLLKNSPEIVSKQDIISFAWGSEFIGDTSLAKCISLLRQ 68
Cdd:PRK12370  31 EKKVNIPPKEYAVLVILLEAAGEIVSKNTLLDQVWGDAEVNEESLTRCIYALRR 84
 
Name Accession Description Interval E-value
CadC1 COG3710
DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];
2-100 1.61e-27

DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];


Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 101.90  E-value: 1.61e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515622627   2 IRFDPIKNRIYNDERSIKIGYRETCVLELLLKNSPEIVSKQDIISFAWGSEFIGDTSLAKCISLLRQGFVKLGIRETPIV 81
Cdd:COG3710    8 FRLDPARRELLRDGEPVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVWPGRVVSDNSLTQAISRLRKALGDDGLEPRLIR 87

                         90
                 ....*....|....*....
gi 515622627  82 TVPKVGYRLIDECVFIDSQ 100
Cdd:COG3710   88 TVPRRGYRLVAPVEVEAPE 106
trans_reg_C cd00383
DNA-binding effector domain of two-component system response regulators; Bacteria and some ...
 2-90 6.96e-17

DNA-binding effector domain of two-component system response regulators; Bacteria and some eukaryotes use two-component signal transduction systems to detect and respond to changes in the environment. The systems consists of a sensor histidine kinase and a response regulator. The former autophosphorylates a histidine residue on detecting an external stimulus. The phosphate is then transferred to an invariant aspartate residue in a highly conserved receiver domain of the response regulator. Phosphorylation activates a variable effector domain of the response regulator, which triggers the cellular response. This C-terminal effector domain belongs to the winged helix-turn-helix family of transcriptional regulators and contains DNA and RNA polymerase binding sites. Several dimers or monomers bind head to tail to small tandem repeats upstream of the genes. The RNA polymerase binding sites interact with the alpha or sigma subunit of RNA polymerase.


Pssm-ID: 294013 [Multi-domain]  Cd Length: 89  Bit Score: 73.67  E-value: 6.96e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515622627   2 IRFDPIKNRIYNDERSIKIGYRETCVLELLLKNSPEIVSKQDIISFAWGSEFIGDT-SLAKCISLLRQgfvKLGIRETP- 79
Cdd:cd00383    1 LRLDPARREVTVDGEEVELTPKEFELLELLARNPGRVVSREELLEAVWGYDYEVDDrTVDVHISRLRK---KLEDDPEPr 77

                         90
                 ....*....|..
gi 515622627  80 -IVTVPKVGYRL 90
Cdd:cd00383   78 lIKTVRGVGYRL 89
Trans_reg_C smart00862
Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...
 15-90 1.98e-13

Transcriptional regulatory protein, C terminal; This domain is almost always found associated with the response regulator receiver domain. It may play a role in DNA binding.


Pssm-ID: 214866 [Multi-domain]  Cd Length: 76  Bit Score: 63.73  E-value: 1.98e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 515622627    15 ERSIKIGYRETCVLELLLKNSPEIVSKQDIISFAWGSEFIGDT-SLAKCISLLRQgfvKLGIRETP--IVTVPKVGYRL 90
Cdd:smart00862   1 GEPIKLTPKEFRLLELLLRNPGRVVSREELLEAVWGDDEDVDDnTLDVHISRLRK---KLEDDGDPrlIETVRGVGYRL 76
Trans_reg_C pfam00486
Transcriptional regulatory protein, C terminal;
16-90 3.50e-11

Transcriptional regulatory protein, C terminal;


Pssm-ID: 425712 [Multi-domain]  Cd Length: 77  Bit Score: 57.91  E-value: 3.50e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 515622627   16 RSIKIGYRETCVLELLLKNSPEIVSKQDIISFAWGSEFIGDT-SLAKCISLLRQGFVKLGIRETPIVTVPKVGYRL 90
Cdd:pfam00486   2 EEVELTPKEFKLLELLAENPGRVVSREQLLEEVWGEDYDVDDnTVDVHISRLRKKLEDDPRDPRLIKTVRGVGYRL 77
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 4-82 1.30e-06

DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain [Signal transduction mechanisms, Transcription];


Pssm-ID: 440508 [Multi-domain]  Cd Length: 204  Bit Score: 47.64  E-value: 1.30e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 515622627   4 FDPIKNRIYNDERSIKIGYRETCVLELLLKNSPEIVSKQDIISFAWGSEFIGDTSLAKCISLLRQgfvKLGirETPIVT 82
Cdd:COG0745  131 LDLAAREVTRDGEPVELTPKEFRLLELLMRNPGRVVSREQLLEEVWGYDYGDDRTVDVHISRLRK---KLE--DDLIET 204
PRK12370 PRK12370
HilA/EilA family virulence transcriptional regulator;
15-68 1.11e-04

HilA/EilA family virulence transcriptional regulator;


Pssm-ID: 237080 [Multi-domain]  Cd Length: 553  Bit Score: 43.30  E-value: 1.11e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 515622627  15 ERSIKIGYRETCVLELLLKNSPEIVSKQDIISFAWGSEFIGDTSLAKCISLLRQ 68
Cdd:PRK12370  31 EKKVNIPPKEYAVLVILLEAAGEIVSKNTLLDQVWGDAEVNEESLTRCIYALRR 84
PRK10153 PRK10153
DNA-binding transcriptional activator CadC; Provisional
 9-140 3.54e-04

DNA-binding transcriptional activator CadC; Provisional


Pssm-ID: 236658 [Multi-domain]  Cd Length: 517  Bit Score: 41.57  E-value: 3.54e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515622627   9 NRIYNDERSIKIGYRETCVLELLLKNSPEIVSKQDIISFAWGSEFIGDTSLAKCISLLRQgFVKLGIRETP--IVTVPKV 86
Cdd:PRK10153  18 NKISRQGREVTLEPRLIDLLVFFAQHSGEVLSRDELIDHVWDRAIVTDHVVTQSISELRK-SLKDGREDNPeyIVTVPKR 96

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 515622627  87 GYRLIdecvfidsqpqsEDTILFNPVSDQIPL--DHSSIAASIPDDHKPESKSSLP 140
Cdd:PRK10153  97 GYKLV------------APVIWYSEEEGEEILasSPPPIPEAVPATAEPSESANAQ 140
orf27 CHL00148
Ycf27; Reviewed
 2-50 2.09e-03

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 38.54  E-value: 2.09e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 515622627   2 IRFDPIKNRIYNDERSIKIGYRETCVLELLLKNSPEIVSKQDIISFAWG 50
Cdd:CHL00148 144 LKIDLNKKQVYKNNERIRLTGMEFSLLELLISKSGEIFSRATILKEVWG 192
PRK11906 PRK11906
HilA family transcriptional regulator YgeH;
18-90 3.14e-03

HilA family transcriptional regulator YgeH;


Pssm-ID: 183373 [Multi-domain]  Cd Length: 458  Bit Score: 38.50  E-value: 3.14e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 515622627  18 IKIGYRETCVLELLLKNSPEIVSKQDIISFAWGSEFIGDTSLAKCISLLRQGFVKLGIrETPIVTVPKVGYRL 90
Cdd:PRK11906  30 VYIPQKELGVLIVLLESAGHVVLKDMIIESVWKNIIVSDESLTRCIYSLRCIFEKIGY-DRCIETIYRKGYRF 101
 
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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