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Conserved domains on  [gi|2512986769|ref|WP_284109620|]
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MULTISPECIES: winged helix-turn-helix domain-containing protein [unclassified Klebsiella]

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];
1-107 8.58e-21

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


:

Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 84.57  E-value: 8.58e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2512986769   1 MRYNINaRLIYDATDGTLTLPGSDepdSQLSITASALLYFFLRHTG-VVSRDEVLKKVWDDNglTSSNSNLNQYLSVLRK 79
Cdd:COG3710     1 MRYRFG-DFRLDPARRELLRDGEP---VRLSPRAFDLLLLLLEHPGrVVSRDELLAAVWPGR--VVSDNSLTQAISRLRK 74

                          90       100
                  ....*....|....*....|....*....
gi 2512986769  80 TFRHYDID-NIIVTVSRGMLQLNQDLSIE 107
Cdd:COG3710    75 ALGDDGLEpRLIRTVPRRGYRLVAPVEVE 103
 
Name Accession Description Interval E-value
CadC1 COG3710
DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];
1-107 8.58e-21

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


Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 84.57  E-value: 8.58e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2512986769   1 MRYNINaRLIYDATDGTLTLPGSDepdSQLSITASALLYFFLRHTG-VVSRDEVLKKVWDDNglTSSNSNLNQYLSVLRK 79
Cdd:COG3710     1 MRYRFG-DFRLDPARRELLRDGEP---VRLSPRAFDLLLLLLEHPGrVVSRDELLAAVWPGR--VVSDNSLTQAISRLRK 74

                          90       100
                  ....*....|....*....|....*....
gi 2512986769  80 TFRHYDID-NIIVTVSRGMLQLNQDLSIE 107
Cdd:COG3710    75 ALGDDGLEpRLIRTVPRRGYRLVAPVEVE 103
trans_reg_C cd00383
DNA-binding effector domain of two-component system response regulators; Bacteria and some ...
 29-97 1.22e-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: 59.41  E-value: 1.22e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2512986769  29 QLSITASALLYFFLRHTG-VVSRDEVLKKVWDDNGLTSSNSnLNQYLSVLRKTFRHYDIDNIIVTVsRGM 97
Cdd:cd00383    18 ELTPKEFELLELLARNPGrVVSREELLEAVWGYDYEVDDRT-VDVHISRLRKKLEDDPEPRLIKTV-RGV 85
Trans_reg_C smart00862
Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...
 30-97 1.04e-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: 56.41  E-value: 1.04e-10
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2512986769   30 LSITASALLYFFLRHTG-VVSRDEVLKKVWDDNGLTSSNSnLNQYLSVLRKTFRHYDIDNIIVTVsRGM 97
Cdd:smart00862   6 LTPKEFRLLELLLRNPGrVVSREELLEAVWGDDEDVDDNT-LDVHISRLRKKLEDDGDPRLIETV-RGV 72
PRK10153 PRK10153
DNA-binding transcriptional activator CadC; Provisional
 37-148 1.40e-10

DNA-binding transcriptional activator CadC; Provisional


Pssm-ID: 236658 [Multi-domain]  Cd Length: 517  Bit Score: 61.21  E-value: 1.40e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2512986769  37 LLYFFLRHTGVV-SRDEVLKKVWDDNGLTssNSNLNQYLSVLRKTFRHYDIDNI--IVTV-SRGM--------LQLNQDL 104
Cdd:PRK10153   36 LLVFFAQHSGEVlSRDELIDHVWDRAIVT--DHVVTQSISELRKSLKDGREDNPeyIVTVpKRGYklvapviwYSEEEGE 113

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 2512986769 105 SIeLLDAGPALADVASPAAPPGEPAgagreTIPPAASPHARGMC 148
Cdd:PRK10153  114 EI-LASSPPPIPEAVPATAEPSESA-----NAQFPAPPLTRAVC 151
Trans_reg_C pfam00486
Transcriptional regulatory protein, C terminal;
30-97 2.05e-09

Transcriptional regulatory protein, C terminal;


Pssm-ID: 425712 [Multi-domain]  Cd Length: 77  Bit Score: 52.90  E-value: 2.05e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2512986769  30 LSITASALLYFFLRHTG-VVSRDEVLKKVWDDNGLTSSNSnLNQYLSVLRKTFRHYDIDN-IIVTVsRGM 97
Cdd:pfam00486   6 LTPKEFKLLELLAENPGrVVSREQLLEEVWGEDYDVDDNT-VDVHISRLRKKLEDDPRDPrLIKTV-RGV 73
 
Name Accession Description Interval E-value
CadC1 COG3710
DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];
1-107 8.58e-21

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


Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 84.57  E-value: 8.58e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2512986769   1 MRYNINaRLIYDATDGTLTLPGSDepdSQLSITASALLYFFLRHTG-VVSRDEVLKKVWDDNglTSSNSNLNQYLSVLRK 79
Cdd:COG3710     1 MRYRFG-DFRLDPARRELLRDGEP---VRLSPRAFDLLLLLLEHPGrVVSRDELLAAVWPGR--VVSDNSLTQAISRLRK 74

                          90       100
                  ....*....|....*....|....*....
gi 2512986769  80 TFRHYDID-NIIVTVSRGMLQLNQDLSIE 107
Cdd:COG3710    75 ALGDDGLEpRLIRTVPRRGYRLVAPVEVE 103
trans_reg_C cd00383
DNA-binding effector domain of two-component system response regulators; Bacteria and some ...
 29-97 1.22e-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: 59.41  E-value: 1.22e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2512986769  29 QLSITASALLYFFLRHTG-VVSRDEVLKKVWDDNGLTSSNSnLNQYLSVLRKTFRHYDIDNIIVTVsRGM 97
Cdd:cd00383    18 ELTPKEFELLELLARNPGrVVSREELLEAVWGYDYEVDDRT-VDVHISRLRKKLEDDPEPRLIKTV-RGV 85
Trans_reg_C smart00862
Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...
 30-97 1.04e-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: 56.41  E-value: 1.04e-10
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2512986769   30 LSITASALLYFFLRHTG-VVSRDEVLKKVWDDNGLTSSNSnLNQYLSVLRKTFRHYDIDNIIVTVsRGM 97
Cdd:smart00862   6 LTPKEFRLLELLLRNPGrVVSREELLEAVWGDDEDVDDNT-LDVHISRLRKKLEDDGDPRLIETV-RGV 72
PRK10153 PRK10153
DNA-binding transcriptional activator CadC; Provisional
 37-148 1.40e-10

DNA-binding transcriptional activator CadC; Provisional


Pssm-ID: 236658 [Multi-domain]  Cd Length: 517  Bit Score: 61.21  E-value: 1.40e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2512986769  37 LLYFFLRHTGVV-SRDEVLKKVWDDNGLTssNSNLNQYLSVLRKTFRHYDIDNI--IVTV-SRGM--------LQLNQDL 104
Cdd:PRK10153   36 LLVFFAQHSGEVlSRDELIDHVWDRAIVT--DHVVTQSISELRKSLKDGREDNPeyIVTVpKRGYklvapviwYSEEEGE 113

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 2512986769 105 SIeLLDAGPALADVASPAAPPGEPAgagreTIPPAASPHARGMC 148
Cdd:PRK10153  114 EI-LASSPPPIPEAVPATAEPSESA-----NAQFPAPPLTRAVC 151
Trans_reg_C pfam00486
Transcriptional regulatory protein, C terminal;
30-97 2.05e-09

Transcriptional regulatory protein, C terminal;


Pssm-ID: 425712 [Multi-domain]  Cd Length: 77  Bit Score: 52.90  E-value: 2.05e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2512986769  30 LSITASALLYFFLRHTG-VVSRDEVLKKVWDDNGLTSSNSnLNQYLSVLRKTFRHYDIDN-IIVTVsRGM 97
Cdd:pfam00486   6 LTPKEFKLLELLAENPGrVVSREQLLEEVWGEDYDVDDNT-VDVHISRLRKKLEDDPRDPrLIKTV-RGV 73
DnrI COG3629
DNA-binding transcriptional regulator DnrI/AfsR/EmbR, SARP family, contains BTAD domain ...
 36-133 1.28e-05

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


Pssm-ID: 442847 [Multi-domain]  Cd Length: 244  Bit Score: 45.22  E-value: 1.28e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2512986769  36 ALLYFFLRHTG-VVSRDEVLKKVWDDNGLTSSNSNLNQYLSVLRKTFRHYDiDNIIVTVSRGmLQLnqDLSIELLDAGPA 114
Cdd:COG3629    28 ALLAYLALRAGrPVSRDRLADLLWGDDPPASARANLRTYVSRLRRALGPAG-GDLLVTRGGG-YRL--DVDPDEVDLHRF 103

                          90
                  ....*....|....*....
gi 2512986769 115 LADVASPAAPPGEPAGAGR 133
Cdd:COG3629   104 ERLVARARAAAGDPAAAAA 122
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 29-92 4.65e-03

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: 37.24  E-value: 4.65e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2512986769  29 QLSITASALLYFFLRHTG-VVSRDEVLKKVWDDNGLTSsnSNLNQYLSVLRKTFRhydiDNIIVT 92
Cdd:COG0745   146 ELTPKEFRLLELLMRNPGrVVSREQLLEEVWGYDYGDD--RTVDVHISRLRKKLE----DDLIET 204
 
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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