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Conserved domains on  [gi|2463709663|ref|WP_276221805|]
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MULTISPECIES: winged helix-turn-helix domain-containing protein [unclassified Pseudocitrobacter]

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];
1-111 1.44e-24

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


:

Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 93.81  E-value: 1.44e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2463709663   1 MKYLLADaIIYDNEDGSLSLKGEesdeRQMLTSTANHIFSLLIAHHGMVVDREKFLQEVWDERglTGSNNSLNQYISILR 80
Cdd:COG3710     1 MRYRFGD-FRLDPARRELLRDGE----PVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVWPGR--VVSDNSLTQAISRLR 73

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2463709663  81 KLLDNMVPGTTFIITVPKTGFMLNAEISVQP 111
Cdd:COG3710    74 KALGDDGLEPRLIRTVPRRGYRLVAPVEVEA 104
 
Name Accession Description Interval E-value
CadC1 COG3710
DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];
1-111 1.44e-24

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


Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 93.81  E-value: 1.44e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2463709663   1 MKYLLADaIIYDNEDGSLSLKGEesdeRQMLTSTANHIFSLLIAHHGMVVDREKFLQEVWDERglTGSNNSLNQYISILR 80
Cdd:COG3710     1 MRYRFGD-FRLDPARRELLRDGE----PVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVWPGR--VVSDNSLTQAISRLR 73

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2463709663  81 KLLDNMVPGTTFIITVPKTGFMLNAEISVQP 111
Cdd:COG3710    74 KALGDDGLEPRLIRTVPRRGYRLVAPVEVEA 104
Trans_reg_C pfam00486
Transcriptional regulatory protein, C terminal;
31-103 7.94e-14

Transcriptional regulatory protein, C terminal;


Pssm-ID: 425712 [Multi-domain]  Cd Length: 77  Bit Score: 64.84  E-value: 7.94e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2463709663  31 LTSTANHIFSLLIAHHGMVVDREKFLQEVWDERGlTGSNNSLNQYISILRKLLDNMVPGTTFIITVPKTGFML 103
Cdd:pfam00486   6 LTPKEFKLLELLAENPGRVVSREQLLEEVWGEDY-DVDDNTVDVHISRLRKKLEDDPRDPRLIKTVRGVGYRL 77
Trans_reg_C smart00862
Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...
 26-103 6.59e-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: 62.18  E-value: 6.59e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2463709663   26 DERQMLTSTANHIFSLLIAHHGMVVDREKFLQEVWDERgLTGSNNSLNQYISILRKLLDNmVPGTTFIITVPKTGFML 103
Cdd:smart00862   1 GEPIKLTPKEFRLLELLLRNPGRVVSREELLEAVWGDD-EDVDDNTLDVHISRLRKKLED-DGDPRLIETVRGVGYRL 76
trans_reg_C cd00383
DNA-binding effector domain of two-component system response regulators; Bacteria and some ...
 9-103 2.22e-12

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: 61.34  E-value: 2.22e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2463709663   9 IIYDNEDGSLSLKGEESDerqmLTSTANHIFSLLIAHHGMVVDREKFLQEVWDERGlTGSNNSLNQYISILRKLLDNmVP 88
Cdd:cd00383     1 LRLDPARREVTVDGEEVE----LTPKEFELLELLARNPGRVVSREELLEAVWGYDY-EVDDRTVDVHISRLRKKLED-DP 74

                          90
                  ....*....|....*
gi 2463709663  89 GTTFIITVPKTGFML 103
Cdd:cd00383    75 EPRLIKTVRGVGYRL 89
PRK10153 PRK10153
DNA-binding transcriptional activator CadC; Provisional
 44-127 8.83e-10

DNA-binding transcriptional activator CadC; Provisional


Pssm-ID: 236658 [Multi-domain]  Cd Length: 517  Bit Score: 58.13  E-value: 8.83e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2463709663  44 AHH-GMVVDREKFLQEVWDERGLTgsNNSLNQYISILRKLL-DNMVPGTTFIITVPKTGFMLNAeiSVQPLSRESAPALP 121
Cdd:PRK10153   41 AQHsGEVLSRDELIDHVWDRAIVT--DHVVTQSISELRKSLkDGREDNPEYIVTVPKRGYKLVA--PVIWYSEEEGEEIL 116


                  ....*.
gi 2463709663 122 APERAP 127
Cdd:PRK10153  117 ASSPPP 122
 
Name Accession Description Interval E-value
CadC1 COG3710
DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];
1-111 1.44e-24

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


Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 93.81  E-value: 1.44e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2463709663   1 MKYLLADaIIYDNEDGSLSLKGEesdeRQMLTSTANHIFSLLIAHHGMVVDREKFLQEVWDERglTGSNNSLNQYISILR 80
Cdd:COG3710     1 MRYRFGD-FRLDPARRELLRDGE----PVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVWPGR--VVSDNSLTQAISRLR 73

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2463709663  81 KLLDNMVPGTTFIITVPKTGFMLNAEISVQP 111
Cdd:COG3710    74 KALGDDGLEPRLIRTVPRRGYRLVAPVEVEA 104
Trans_reg_C pfam00486
Transcriptional regulatory protein, C terminal;
31-103 7.94e-14

Transcriptional regulatory protein, C terminal;


Pssm-ID: 425712 [Multi-domain]  Cd Length: 77  Bit Score: 64.84  E-value: 7.94e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2463709663  31 LTSTANHIFSLLIAHHGMVVDREKFLQEVWDERGlTGSNNSLNQYISILRKLLDNMVPGTTFIITVPKTGFML 103
Cdd:pfam00486   6 LTPKEFKLLELLAENPGRVVSREQLLEEVWGEDY-DVDDNTVDVHISRLRKKLEDDPRDPRLIKTVRGVGYRL 77
Trans_reg_C smart00862
Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...
 26-103 6.59e-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: 62.18  E-value: 6.59e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2463709663   26 DERQMLTSTANHIFSLLIAHHGMVVDREKFLQEVWDERgLTGSNNSLNQYISILRKLLDNmVPGTTFIITVPKTGFML 103
Cdd:smart00862   1 GEPIKLTPKEFRLLELLLRNPGRVVSREELLEAVWGDD-EDVDDNTLDVHISRLRKKLED-DGDPRLIETVRGVGYRL 76
trans_reg_C cd00383
DNA-binding effector domain of two-component system response regulators; Bacteria and some ...
 9-103 2.22e-12

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: 61.34  E-value: 2.22e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2463709663   9 IIYDNEDGSLSLKGEESDerqmLTSTANHIFSLLIAHHGMVVDREKFLQEVWDERGlTGSNNSLNQYISILRKLLDNmVP 88
Cdd:cd00383     1 LRLDPARREVTVDGEEVE----LTPKEFELLELLARNPGRVVSREELLEAVWGYDY-EVDDRTVDVHISRLRKKLED-DP 74

                          90
                  ....*....|....*
gi 2463709663  89 GTTFIITVPKTGFML 103
Cdd:cd00383    75 EPRLIKTVRGVGYRL 89
PRK10153 PRK10153
DNA-binding transcriptional activator CadC; Provisional
 44-127 8.83e-10

DNA-binding transcriptional activator CadC; Provisional


Pssm-ID: 236658 [Multi-domain]  Cd Length: 517  Bit Score: 58.13  E-value: 8.83e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2463709663  44 AHH-GMVVDREKFLQEVWDERGLTgsNNSLNQYISILRKLL-DNMVPGTTFIITVPKTGFMLNAeiSVQPLSRESAPALP 121
Cdd:PRK10153   41 AQHsGEVLSRDELIDHVWDRAIVT--DHVVTQSISELRKSLkDGREDNPEYIVTVPKRGYKLVA--PVIWYSEEEGEEIL 116


                  ....*.
gi 2463709663 122 APERAP 127
Cdd:PRK10153  117 ASSPPP 122
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 10-85 1.30e-05

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: 44.56  E-value: 1.30e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2463709663  10 IYDNEDGSLSLKGEESDerqmLTSTANHIFSLLIAHHGMVVDREKFLQEVWDERGltGSNNSLNQYISILRKLLDN 85
Cdd:COG0745   130 LLDLAAREVTRDGEPVE----LTPKEFRLLELLMRNPGRVVSREQLLEEVWGYDY--GDDRTVDVHISRLRKKLED 199
DnrI COG3629
DNA-binding transcriptional regulator DnrI/AfsR/EmbR, SARP family, contains BTAD domain ...
 38-106 4.32e-05

DNA-binding transcriptional regulator DnrI/AfsR/EmbR, SARP family, contains BTAD domain [Transcription];


Pssm-ID: 442847 [Multi-domain]  Cd Length: 244  Bit Score: 43.29  E-value: 4.32e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2463709663  38 IFSLLIAHHGMVVDREKFLQEVWDERGLTGSNNSLNQYISILRKLLDnmVPGTTFIITVPkTGFMLNAE 106
Cdd:COG3629    29 LLAYLALRAGRPVSRDRLADLLWGDDPPASARANLRTYVSRLRRALG--PAGGDLLVTRG-GGYRLDVD 94
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
31-103 4.18e-03

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 37.47  E-value: 4.18e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2463709663  31 LTSTANHIFSLLIAHHGMVVDREKFLQEVWDERgLTGSNNSLNQYISILRKLLDNMVPGTTFIITVPKTGFML 103
Cdd:PRK10955  157 LTGTEFTLLYLLAQHLGQVVSREHLSQEVLGKR-LTPFDRAIDMHISNLRRKLPDRKDGHPWFKTLRGRGYLM 228
 
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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