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Conserved domains on  [gi|919181986|ref|WP_052737584|]
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winged helix-turn-helix domain-containing protein [Grimontia sp. AD028]

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];
13-120 3.11e-20

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


:

Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 82.64  E-value: 3.11e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 919181986  13 YYRIGDtFLLDTRLHTLTNEdtGEVTELSLNESLLLQLLIKEKGEIVSRQQILADVWEprGLVVDESSVNQSISLLRKAF 92
Cdd:COG3710    2 RYRFGD-FRLDPARRELLRD--GEPVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVWP--GRVVSDNSLTQAISRLRKAL 76

                         90       100
                 ....*....|....*....|....*...
gi 919181986  93 NDTAKDQMVIKTIPKMGYLLVLEANPSE 120
Cdd:COG3710   77 GDDGLEPRLIRTVPRRGYRLVAPVEVEA 104
 
Name Accession Description Interval E-value
CadC1 COG3710
DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];
13-120 3.11e-20

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


Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 82.64  E-value: 3.11e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 919181986  13 YYRIGDtFLLDTRLHTLTNEdtGEVTELSLNESLLLQLLIKEKGEIVSRQQILADVWEprGLVVDESSVNQSISLLRKAF 92
Cdd:COG3710    2 RYRFGD-FRLDPARRELLRD--GEPVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVWP--GRVVSDNSLTQAISRLRKAL 76

                         90       100
                 ....*....|....*....|....*...
gi 919181986  93 NDTAKDQMVIKTIPKMGYLLVLEANPSE 120
Cdd:COG3710   77 GDDGLEPRLIRTVPRRGYRLVAPVEVEA 104
Trans_reg_C pfam00486
Transcriptional regulatory protein, C terminal;
55-112 8.51e-12

Transcriptional regulatory protein, C terminal;


Pssm-ID: 425712 [Multi-domain]  Cd Length: 77  Bit Score: 59.45  E-value: 8.51e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 919181986   55 KGEIVSRQQILADVWEpRGLVVDESSVNQSISLLRKAFNDTAKDQMVIKTIPKMGYLL 112
Cdd:pfam00486  21 PGRVVSREQLLEEVWG-EDYDVDDNTVDVHISRLRKKLEDDPRDPRLIKTVRGVGYRL 77
trans_reg_C cd00383
DNA-binding effector domain of two-component system response regulators; Bacteria and some ...
 52-112 7.44e-11

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: 57.10  E-value: 7.44e-11
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 919181986  52 IKEKGEIVSRQQILADVWePRGLVVDESSVNQSISLLRKAFNDTAKDQmVIKTIPKMGYLL 112
Cdd:cd00383   31 ARNPGRVVSREELLEAVW-GYDYEVDDRTVDVHISRLRKKLEDDPEPR-LIKTVRGVGYRL 89
Trans_reg_C smart00862
Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...
 52-112 1.76e-10

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: 55.64  E-value: 1.76e-10
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 919181986    52 IKEKGEIVSRQQILADVWePRGLVVDESSVNQSISLLRKAFNDtAKDQMVIKTIPKMGYLL 112
Cdd:smart00862  18 LRNPGRVVSREELLEAVW-GDDEDVDDNTLDVHISRLRKKLED-DGDPRLIETVRGVGYRL 76
PRK10153 PRK10153
DNA-binding transcriptional activator CadC; Provisional
 56-130 2.23e-05

DNA-binding transcriptional activator CadC; Provisional


Pssm-ID: 236658 [Multi-domain]  Cd Length: 517  Bit Score: 45.03  E-value: 2.23e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 919181986  56 GEIVSRQQILADVWEprGLVVDESSVNQSISLLRKAFNDTAKDQMV-IKTIPKMGYLLV------LEANPSELATPSEPE 128
Cdd:PRK10153  45 GEVLSRDELIDHVWD--RAIVTDHVVTQSISELRKSLKDGREDNPEyIVTVPKRGYKLVapviwySEEEGEEILASSPPP 122


                 ..
gi 919181986 129 VE 130
Cdd:PRK10153 123 IP 124
 
Name Accession Description Interval E-value
CadC1 COG3710
DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];
13-120 3.11e-20

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


Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 82.64  E-value: 3.11e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 919181986  13 YYRIGDtFLLDTRLHTLTNEdtGEVTELSLNESLLLQLLIKEKGEIVSRQQILADVWEprGLVVDESSVNQSISLLRKAF 92
Cdd:COG3710    2 RYRFGD-FRLDPARRELLRD--GEPVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVWP--GRVVSDNSLTQAISRLRKAL 76

                         90       100
                 ....*....|....*....|....*...
gi 919181986  93 NDTAKDQMVIKTIPKMGYLLVLEANPSE 120
Cdd:COG3710   77 GDDGLEPRLIRTVPRRGYRLVAPVEVEA 104
Trans_reg_C pfam00486
Transcriptional regulatory protein, C terminal;
55-112 8.51e-12

Transcriptional regulatory protein, C terminal;


Pssm-ID: 425712 [Multi-domain]  Cd Length: 77  Bit Score: 59.45  E-value: 8.51e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 919181986   55 KGEIVSRQQILADVWEpRGLVVDESSVNQSISLLRKAFNDTAKDQMVIKTIPKMGYLL 112
Cdd:pfam00486  21 PGRVVSREQLLEEVWG-EDYDVDDNTVDVHISRLRKKLEDDPRDPRLIKTVRGVGYRL 77
trans_reg_C cd00383
DNA-binding effector domain of two-component system response regulators; Bacteria and some ...
 52-112 7.44e-11

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: 57.10  E-value: 7.44e-11
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 919181986  52 IKEKGEIVSRQQILADVWePRGLVVDESSVNQSISLLRKAFNDTAKDQmVIKTIPKMGYLL 112
Cdd:cd00383   31 ARNPGRVVSREELLEAVW-GYDYEVDDRTVDVHISRLRKKLEDDPEPR-LIKTVRGVGYRL 89
Trans_reg_C smart00862
Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...
 52-112 1.76e-10

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: 55.64  E-value: 1.76e-10
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 919181986    52 IKEKGEIVSRQQILADVWePRGLVVDESSVNQSISLLRKAFNDtAKDQMVIKTIPKMGYLL 112
Cdd:smart00862  18 LRNPGRVVSREELLEAVW-GDDEDVDDNTLDVHISRLRKKLED-DGDPRLIETVRGVGYRL 76
PRK10153 PRK10153
DNA-binding transcriptional activator CadC; Provisional
 56-130 2.23e-05

DNA-binding transcriptional activator CadC; Provisional


Pssm-ID: 236658 [Multi-domain]  Cd Length: 517  Bit Score: 45.03  E-value: 2.23e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 919181986  56 GEIVSRQQILADVWEprGLVVDESSVNQSISLLRKAFNDTAKDQMV-IKTIPKMGYLLV------LEANPSELATPSEPE 128
Cdd:PRK10153  45 GEVLSRDELIDHVWD--RAIVTDHVVTQSISELRKSLKDGREDNPEyIVTVPKRGYKLVapviwySEEEGEEILASSPPP 122


                 ..
gi 919181986 129 VE 130
Cdd:PRK10153 123 IP 124
PRK10701 PRK10701
DNA-binding transcriptional regulator RstA; Provisional
 56-116 8.27e-04

DNA-binding transcriptional regulator RstA; Provisional


Pssm-ID: 236738 [Multi-domain]  Cd Length: 240  Bit Score: 39.62  E-value: 8.27e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 919181986  56 GEIVSRQQILADVwepRGLVVD--ESSVNQSISLLRKAFNDTAKDQMVIKTIPKMGYLLVLEA 116
Cdd:PRK10701 178 GQIMDRDALLKNL---RGVSYDglDRSVDVAISRLRKKLLDNAAEPYRIKTVRNKGYLFAPHA 237
orf27 CHL00148
Ycf27; Reviewed
 52-111 1.07e-03

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 39.31  E-value: 1.07e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 919181986  52 IKEKGEIVSRQQILADVWE---PRGlvVDESSVNQSISLLRKAFNDTAKDQMVIKTIPKMGYL 111
Cdd:CHL00148 174 ISKSGEIFSRATILKEVWGytpERH--IDTRVVDVHISRLRAKLEDDPSNPDLILTARGTGYL 234
 
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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