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Conserved domains on  [gi|896081672|ref|WP_049121594|]
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MULTISPECIES: winged helix-turn-helix domain-containing protein [Enterobacter]

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];
1-113 4.14e-18

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


:

Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 76.87  E-value: 4.14e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 896081672   1 MKYLLADaIVYNDEDGSVSLinapDEDAQLLTCTANTIMKLLVQHHGNVVERETFLQEVWDRRGlqGSNNSLNQYISILR 80
Cdd:COG3710    1 MRYRFGD-FRLDPARRELLR----DGEPVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVWPGRV--VSDNSLTQAISRLR 73

                         90       100       110
                 ....*....|....*....|....*....|...
gi 896081672  81 KMLAALLPDALLIVTVPKTGFMLSADVKVTPLE 113
Cdd:COG3710   74 KALGDDGLEPRLIRTVPRRGYRLVAPVEVEAPE 106
 
Name Accession Description Interval E-value
CadC1 COG3710
DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];
1-113 4.14e-18

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


Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 76.87  E-value: 4.14e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 896081672   1 MKYLLADaIVYNDEDGSVSLinapDEDAQLLTCTANTIMKLLVQHHGNVVERETFLQEVWDRRGlqGSNNSLNQYISILR 80
Cdd:COG3710    1 MRYRFGD-FRLDPARRELLR----DGEPVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVWPGRV--VSDNSLTQAISRLR 73

                         90       100       110
                 ....*....|....*....|....*....|...
gi 896081672  81 KMLAALLPDALLIVTVPKTGFMLSADVKVTPLE 113
Cdd:COG3710   74 KALGDDGLEPRLIRTVPRRGYRLVAPVEVEAPE 106
Trans_reg_C pfam00486
Transcriptional regulatory protein, C terminal;
38-103 3.95e-11

Transcriptional regulatory protein, C terminal;


Pssm-ID: 425712 [Multi-domain]  Cd Length: 77  Bit Score: 57.52  E-value: 3.95e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 896081672   38 IMKLLVQHHGNVVERETFLQEVWDRRGlQGSNNSLNQYISILRKMLAALLPDALLIVTVPKTGFML 103
Cdd:pfam00486  13 LLELLAENPGRVVSREQLLEEVWGEDY-DVDDNTVDVHISRLRKKLEDDPRDPRLIKTVRGVGYRL 77
Trans_reg_C smart00862
Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...
 38-103 1.29e-08

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: 50.63  E-value: 1.29e-08
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 896081672    38 IMKLLVQHHGNVVERETFLQEVWDRRGLqGSNNSLNQYISILRKMlAALLPDALLIVTVPKTGFML 103
Cdd:smart00862  13 LLELLLRNPGRVVSREELLEAVWGDDED-VDDNTLDVHISRLRKK-LEDDGDPRLIETVRGVGYRL 76
trans_reg_C cd00383
DNA-binding effector domain of two-component system response regulators; Bacteria and some ...
 31-103 2.57e-08

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: 50.17  E-value: 2.57e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 896081672  31 LTCTANTIMKLLVQHHGNVVERETFLQEVWDRRGLqGSNNSLNQYISILRKMlAALLPDALLIVTVPKTGFML 103
Cdd:cd00383   19 LTPKEFELLELLARNPGRVVSREELLEAVWGYDYE-VDDRTVDVHISRLRKK-LEDDPEPRLIKTVRGVGYRL 89
PRK10153 PRK10153
DNA-binding transcriptional activator CadC; Provisional
 42-125 1.61e-05

DNA-binding transcriptional activator CadC; Provisional


Pssm-ID: 236658 [Multi-domain]  Cd Length: 517  Bit Score: 45.42  E-value: 1.61e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 896081672  42 LVQHHGNVVERETFLQEVWDRRGLqgSNNSLNQYISILRK-MLAALLPDALLIVTVPKTGFMLSADVK------------ 108
Cdd:PRK10153  40 FAQHSGEVLSRDELIDHVWDRAIV--TDHVVTQSISELRKsLKDGREDNPEYIVTVPKRGYKLVAPVIwyseeegeeila 117

                         90
                 ....*....|....*....
gi 896081672 109 --VTPLEEAPPTAETAKPA 125
Cdd:PRK10153 118 ssPPPIPEAVPATAEPSES 136
 
Name Accession Description Interval E-value
CadC1 COG3710
DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];
1-113 4.14e-18

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


Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 76.87  E-value: 4.14e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 896081672   1 MKYLLADaIVYNDEDGSVSLinapDEDAQLLTCTANTIMKLLVQHHGNVVERETFLQEVWDRRGlqGSNNSLNQYISILR 80
Cdd:COG3710    1 MRYRFGD-FRLDPARRELLR----DGEPVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVWPGRV--VSDNSLTQAISRLR 73

                         90       100       110
                 ....*....|....*....|....*....|...
gi 896081672  81 KMLAALLPDALLIVTVPKTGFMLSADVKVTPLE 113
Cdd:COG3710   74 KALGDDGLEPRLIRTVPRRGYRLVAPVEVEAPE 106
Trans_reg_C pfam00486
Transcriptional regulatory protein, C terminal;
38-103 3.95e-11

Transcriptional regulatory protein, C terminal;


Pssm-ID: 425712 [Multi-domain]  Cd Length: 77  Bit Score: 57.52  E-value: 3.95e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 896081672   38 IMKLLVQHHGNVVERETFLQEVWDRRGlQGSNNSLNQYISILRKMLAALLPDALLIVTVPKTGFML 103
Cdd:pfam00486  13 LLELLAENPGRVVSREQLLEEVWGEDY-DVDDNTVDVHISRLRKKLEDDPRDPRLIKTVRGVGYRL 77
Trans_reg_C smart00862
Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...
 38-103 1.29e-08

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: 50.63  E-value: 1.29e-08
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 896081672    38 IMKLLVQHHGNVVERETFLQEVWDRRGLqGSNNSLNQYISILRKMlAALLPDALLIVTVPKTGFML 103
Cdd:smart00862  13 LLELLLRNPGRVVSREELLEAVWGDDED-VDDNTLDVHISRLRKK-LEDDGDPRLIETVRGVGYRL 76
trans_reg_C cd00383
DNA-binding effector domain of two-component system response regulators; Bacteria and some ...
 31-103 2.57e-08

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: 50.17  E-value: 2.57e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 896081672  31 LTCTANTIMKLLVQHHGNVVERETFLQEVWDRRGLqGSNNSLNQYISILRKMlAALLPDALLIVTVPKTGFML 103
Cdd:cd00383   19 LTPKEFELLELLARNPGRVVSREELLEAVWGYDYE-VDDRTVDVHISRLRKK-LEDDPEPRLIKTVRGVGYRL 89
PRK10153 PRK10153
DNA-binding transcriptional activator CadC; Provisional
 42-125 1.61e-05

DNA-binding transcriptional activator CadC; Provisional


Pssm-ID: 236658 [Multi-domain]  Cd Length: 517  Bit Score: 45.42  E-value: 1.61e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 896081672  42 LVQHHGNVVERETFLQEVWDRRGLqgSNNSLNQYISILRK-MLAALLPDALLIVTVPKTGFMLSADVK------------ 108
Cdd:PRK10153  40 FAQHSGEVLSRDELIDHVWDRAIV--TDHVVTQSISELRKsLKDGREDNPEYIVTVPKRGYKLVAPVIwyseeegeeila 117

                         90
                 ....*....|....*....
gi 896081672 109 --VTPLEEAPPTAETAKPA 125
Cdd:PRK10153 118 ssPPPIPEAVPATAEPSES 136
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 31-81 1.53e-04

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: 41.48  E-value: 1.53e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 896081672  31 LTCTANTIMKLLVQHHGNVVERETFLQEVWDRRGlqGSNNSLNQYISILRK 81
Cdd:COG0745  147 LTPKEFRLLELLMRNPGRVVSREQLLEEVWGYDY--GDDRTVDVHISRLRK 195
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
31-81 4.12e-04

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 40.56  E-value: 4.12e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 896081672  31 LTCTANTIMKLLVQHHGNVVERETFLQEVWDRRgLQGSNNSLNQYISILRK 81
Cdd:PRK10955 157 LTGTEFTLLYLLAQHLGQVVSREHLSQEVLGKR-LTPFDRAIDMHISNLRR 206
 
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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