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Conserved domains on  [gi|16130751|ref|NP_417324|]
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putative transcriptional regulator YqeI [Escherichia coli str. K-12 substr. MG1655]

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];
1-110 3.02e-23

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


:

Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 91.12  E-value: 3.02e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130751   1 MYWIINDnIEFWPEHRKLisvHNADLNVVLTTPASRCLSLLLEAFPDVVAQQDFFTRVWeeEGMRVPTNTLYQNISIIRR 80
Cdd:COG3710   1 MRYRFGD-FRLDPARREL---LRDGEPVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVW--PGRVVSDNSLTQAISRLRK 74

                        90       100       110
                ....*....|....*....|....*....|
gi 16130751  81 GFRAVGDtTHSLIATVPRRGFKIHNDINIQ 110
Cdd:COG3710  75 ALGDDGL-EPRLIRTVPRRGYRLVAPVEVE 103
 
Name Accession Description Interval E-value
CadC1 COG3710
DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];
1-110 3.02e-23

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


Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 91.12  E-value: 3.02e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130751   1 MYWIINDnIEFWPEHRKLisvHNADLNVVLTTPASRCLSLLLEAFPDVVAQQDFFTRVWeeEGMRVPTNTLYQNISIIRR 80
Cdd:COG3710   1 MRYRFGD-FRLDPARREL---LRDGEPVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVW--PGRVVSDNSLTQAISRLRK 74

                        90       100       110
                ....*....|....*....|....*....|
gi 16130751  81 GFRAVGDtTHSLIATVPRRGFKIHNDINIQ 110
Cdd:COG3710  75 ALGDDGL-EPRLIRTVPRRGYRLVAPVEVE 103
Trans_reg_C pfam00486
Transcriptional regulatory protein, C terminal;
28-103 5.15e-09

Transcriptional regulatory protein, C terminal;


Pssm-ID: 425712 [Multi-domain]  Cd Length: 77  Bit Score: 51.74  E-value: 5.15e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 16130751    28 VVLTTPASRCLSLLLEAFPDVVAQQDFFTRVWEEEGMrVPTNTLYQNISIIRRGFRAVGDTTHsLIATVPRRGFKI 103
Cdd:pfam00486   4 VELTPKEFKLLELLAENPGRVVSREQLLEEVWGEDYD-VDDNTVDVHISRLRKKLEDDPRDPR-LIKTVRGVGYRL 77
Trans_reg_C smart00862
Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...
 28-103 3.34e-07

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: 46.78  E-value: 3.34e-07
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 16130751     28 VVLTTPASRCLSLLLEAFPDVVAQQDFFTRVWEEEGmRVPTNTLYQNISIIRRGFRAVGDttHSLIATVPRRGFKI 103
Cdd:smart00862   4 IKLTPKEFRLLELLLRNPGRVVSREELLEAVWGDDE-DVDDNTLDVHISRLRKKLEDDGD--PRLIETVRGVGYRL 76
trans_reg_C cd00383
DNA-binding effector domain of two-component system response regulators; Bacteria and some ...
 13-103 5.37e-05

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: 40.93  E-value: 5.37e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130751  13 PEHRKLiSVHNADLNvvLTTPASRCLSLLLEAFPDVVAQQDFFTRVWEEEGMrVPTNTLYQNISIIRRGFRAVGDttHSL 92
Cdd:cd00383   5 PARREV-TVDGEEVE--LTPKEFELLELLARNPGRVVSREELLEAVWGYDYE-VDDRTVDVHISRLRKKLEDDPE--PRL 78

                        90
                ....*....|.
gi 16130751  93 IATVPRRGFKI 103
Cdd:cd00383  79 IKTVRGVGYRL 89
 
Name Accession Description Interval E-value
CadC1 COG3710
DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];
1-110 3.02e-23

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


Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 91.12  E-value: 3.02e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130751   1 MYWIINDnIEFWPEHRKLisvHNADLNVVLTTPASRCLSLLLEAFPDVVAQQDFFTRVWeeEGMRVPTNTLYQNISIIRR 80
Cdd:COG3710   1 MRYRFGD-FRLDPARREL---LRDGEPVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVW--PGRVVSDNSLTQAISRLRK 74

                        90       100       110
                ....*....|....*....|....*....|
gi 16130751  81 GFRAVGDtTHSLIATVPRRGFKIHNDINIQ 110
Cdd:COG3710  75 ALGDDGL-EPRLIRTVPRRGYRLVAPVEVE 103
Trans_reg_C pfam00486
Transcriptional regulatory protein, C terminal;
28-103 5.15e-09

Transcriptional regulatory protein, C terminal;


Pssm-ID: 425712 [Multi-domain]  Cd Length: 77  Bit Score: 51.74  E-value: 5.15e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 16130751    28 VVLTTPASRCLSLLLEAFPDVVAQQDFFTRVWEEEGMrVPTNTLYQNISIIRRGFRAVGDTTHsLIATVPRRGFKI 103
Cdd:pfam00486   4 VELTPKEFKLLELLAENPGRVVSREQLLEEVWGEDYD-VDDNTVDVHISRLRKKLEDDPRDPR-LIKTVRGVGYRL 77
Trans_reg_C smart00862
Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...
 28-103 3.34e-07

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: 46.78  E-value: 3.34e-07
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 16130751     28 VVLTTPASRCLSLLLEAFPDVVAQQDFFTRVWEEEGmRVPTNTLYQNISIIRRGFRAVGDttHSLIATVPRRGFKI 103
Cdd:smart00862   4 IKLTPKEFRLLELLLRNPGRVVSREELLEAVWGDDE-DVDDNTLDVHISRLRKKLEDDGD--PRLIETVRGVGYRL 76
trans_reg_C cd00383
DNA-binding effector domain of two-component system response regulators; Bacteria and some ...
 13-103 5.37e-05

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: 40.93  E-value: 5.37e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130751  13 PEHRKLiSVHNADLNvvLTTPASRCLSLLLEAFPDVVAQQDFFTRVWEEEGMrVPTNTLYQNISIIRRGFRAVGDttHSL 92
Cdd:cd00383   5 PARREV-TVDGEEVE--LTPKEFELLELLARNPGRVVSREELLEAVWGYDYE-VDDRTVDVHISRLRKKLEDDPE--PRL 78

                        90
                ....*....|.
gi 16130751  93 IATVPRRGFKI 103
Cdd:cd00383  79 IKTVRGVGYRL 89
 
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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