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Conserved domains on  [gi|2053343708|gb|QWR90434|]
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putative DNA-binding transcriptional regulator [Cronobacter sakazakii]

Protein Classification

MerR family transcriptional regulator( domain architecture ID 323)

MerR family transcriptional regulator activates transcription through protein-dependent DNA distortion and the majority of regulators in the family respond to environmental stimuli, such as oxidative stress, heavy metals or antibiotics

CATH:  1.10.10.10
Gene Ontology:  GO:0006355|GO:0003677|GO:0003700
PubMed:  17302809|12829265|15808743|35130613
SCOP:  3000158

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_MerR-SF super family cl02600
Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; ...
 8-127 1.79e-24

Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Helix-turn-helix (HTH) transcription regulator MerR superfamily, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.


The actual alignment was detected with superfamily member pfam07037:

Pssm-ID: 470628  Cd Length: 122  Bit Score: 90.30  E-value: 1.79e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053343708   8 MTAGELGELSGYTAQAISRWARKYGWKRIPLKGRKGG-ALLILITQQVYDYFLATDKLRYSAHLYnRIEETPAPY-VTWD 85
Cdd:pfam07037   1 MTPEELAECLGYARQTINRWVREEGWRTEPFPGVKGGrARLVHVDEQVREFIRNAPAFRNLLTDN-RAAESPAEYaPNER 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2053343708  86 NEMMAQFIRTLEMLSPQEQARLSELISEEGAAGLVKRLGLRD 127
Cdd:pfam07037  80 APLERQIITLAKEMTPSEQKQLASLLSREGIRGFLARLGIRD 121
 
Name Accession Description Interval E-value
DUF1323 pfam07037
Putative transcription regulator (DUF1323); This family consists of several hypothetical ...
 8-127 1.79e-24

Putative transcription regulator (DUF1323); This family consists of several hypothetical Enterobacterial proteins of around 120 residues in length. This family appears to have an HTH domain and is therefore likely to act as a transcriptional regulator.


Pssm-ID: 399786  Cd Length: 122  Bit Score: 90.30  E-value: 1.79e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053343708   8 MTAGELGELSGYTAQAISRWARKYGWKRIPLKGRKGG-ALLILITQQVYDYFLATDKLRYSAHLYnRIEETPAPY-VTWD 85
Cdd:pfam07037   1 MTPEELAECLGYARQTINRWVREEGWRTEPFPGVKGGrARLVHVDEQVREFIRNAPAFRNLLTDN-RAAESPAEYaPNER 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2053343708  86 NEMMAQFIRTLEMLSPQEQARLSELISEEGAAGLVKRLGLRD 127
Cdd:pfam07037  80 APLERQIITLAKEMTPSEQKQLASLLSREGIRGFLARLGIRD 121
 
Name Accession Description Interval E-value
DUF1323 pfam07037
Putative transcription regulator (DUF1323); This family consists of several hypothetical ...
 8-127 1.79e-24

Putative transcription regulator (DUF1323); This family consists of several hypothetical Enterobacterial proteins of around 120 residues in length. This family appears to have an HTH domain and is therefore likely to act as a transcriptional regulator.


Pssm-ID: 399786  Cd Length: 122  Bit Score: 90.30  E-value: 1.79e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053343708   8 MTAGELGELSGYTAQAISRWARKYGWKRIPLKGRKGG-ALLILITQQVYDYFLATDKLRYSAHLYnRIEETPAPY-VTWD 85
Cdd:pfam07037   1 MTPEELAECLGYARQTINRWVREEGWRTEPFPGVKGGrARLVHVDEQVREFIRNAPAFRNLLTDN-RAAESPAEYaPNER 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2053343708  86 NEMMAQFIRTLEMLSPQEQARLSELISEEGAAGLVKRLGLRD 127
Cdd:pfam07037  80 APLERQIITLAKEMTPSEQKQLASLLSREGIRGFLARLGIRD 121
 
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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