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Conserved domains on  [gi|1005575832|ref|WP_061668051|]
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MULTISPECIES: MerR family transcriptional regulator [Bacillus]

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
MerR_1 super family cl46327
MerR HTH family regulatory protein;
7-70 7.70e-06

MerR HTH family regulatory protein;


The actual alignment was detected with superfamily member pfam13411:

Pssm-ID: 463870  Cd Length: 66  Bit Score: 42.16  E-value: 7.70e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1005575832   7 TISQIAKELQIPESTARYYRDRFINYIPFVGKGRAkKYRPETVEILRFIAEGFNRNLTAMEIEE 70
Cdd:pfam13411   2 TISELARLLGVTPRTLRYWEREGLLPPPRTERGRR-YYTDEDVERLRLIKALLERGLSLKEIKE 64
 
Name Accession Description Interval E-value
MerR_1 pfam13411
MerR HTH family regulatory protein;
7-70 7.70e-06

MerR HTH family regulatory protein;


Pssm-ID: 463870  Cd Length: 66  Bit Score: 42.16  E-value: 7.70e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1005575832   7 TISQIAKELQIPESTARYYRDRFINYIPFVGKGRAkKYRPETVEILRFIAEGFNRNLTAMEIEE 70
Cdd:pfam13411   2 TISELARLLGVTPRTLRYWEREGLLPPPRTERGRR-YYTDEDVERLRLIKALLERGLSLKEIKE 64
HTH_MlrA-like_sg1 cd04764
Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Putative ...
 7-72 2.39e-03

Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 1). The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA-like proteins in this group appear to lack the long dimerization helix seen in the N-terminal domains of typical MerR-like proteins.


Pssm-ID: 133392  Cd Length: 67  Bit Score: 35.38  E-value: 2.39e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1005575832   7 TISQIAKELQIPESTARYYRDRFINYIPFVGKGRaKKYRPETVEILRFIAEGFNRNLTAMEIEEGL 72
Cdd:cd04764     2 TIKEVSEIIGVKPHTLRYYEKEFNLYIPRTENGR-RYYTDEDIELLKKIKTLLEKGLSIKEIKEIL 66
SoxR COG0789
DNA-binding transcriptional regulator, MerR family [Transcription];
8-99 4.30e-03

DNA-binding transcriptional regulator, MerR family [Transcription];


Pssm-ID: 440552 [Multi-domain]  Cd Length: 100  Bit Score: 35.27  E-value: 4.30e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1005575832   8 ISQIAKELQIPESTARYYRDrfINYIPFVGK--GRAKKYRPETVEILRFIAEGFNRNLTAMEIEEGLSRMVARNVEVEEE 85
Cdd:COG0789     1 IGEVARLTGVSVRTLRYYER--IGLLPPPERteGGYRLYSEEDVERLRFIRRLRELGFSLAEIRELLDLLDDGEEEVREL 78

                          90
                  ....*....|....
gi 1005575832  86 TATTIAAAQQQWED 99
Cdd:COG0789    79 LEEHLAELEAQIAE 92
 
Name Accession Description Interval E-value
MerR_1 pfam13411
MerR HTH family regulatory protein;
7-70 7.70e-06

MerR HTH family regulatory protein;


Pssm-ID: 463870  Cd Length: 66  Bit Score: 42.16  E-value: 7.70e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1005575832   7 TISQIAKELQIPESTARYYRDRFINYIPFVGKGRAkKYRPETVEILRFIAEGFNRNLTAMEIEE 70
Cdd:pfam13411   2 TISELARLLGVTPRTLRYWEREGLLPPPRTERGRR-YYTDEDVERLRLIKALLERGLSLKEIKE 64
HTH_MlrA-like_sg1 cd04764
Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Putative ...
 7-72 2.39e-03

Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 1). The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA-like proteins in this group appear to lack the long dimerization helix seen in the N-terminal domains of typical MerR-like proteins.


Pssm-ID: 133392  Cd Length: 67  Bit Score: 35.38  E-value: 2.39e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1005575832   7 TISQIAKELQIPESTARYYRDRFINYIPFVGKGRaKKYRPETVEILRFIAEGFNRNLTAMEIEEGL 72
Cdd:cd04764     2 TIKEVSEIIGVKPHTLRYYEKEFNLYIPRTENGR-RYYTDEDIELLKKIKTLLEKGLSIKEIKEIL 66
HTH_MlrA-like_sg2 cd04765
Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Putative ...
 7-55 3.38e-03

Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 2), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.


Pssm-ID: 133393  Cd Length: 99  Bit Score: 35.69  E-value: 3.38e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1005575832   7 TISQIAKELQIPESTARYYRDRFINYIPFVGKGRAKKYRPETVEILRFI 55
Cdd:cd04765     2 SIGEVAEILGLPPHVLRYWETEFPQLKPVKRAGGRRYYRPKDVELLLLI 50
SoxR COG0789
DNA-binding transcriptional regulator, MerR family [Transcription];
8-99 4.30e-03

DNA-binding transcriptional regulator, MerR family [Transcription];


Pssm-ID: 440552 [Multi-domain]  Cd Length: 100  Bit Score: 35.27  E-value: 4.30e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1005575832   8 ISQIAKELQIPESTARYYRDrfINYIPFVGK--GRAKKYRPETVEILRFIAEGFNRNLTAMEIEEGLSRMVARNVEVEEE 85
Cdd:COG0789     1 IGEVARLTGVSVRTLRYYER--IGLLPPPERteGGYRLYSEEDVERLRFIRRLRELGFSLAEIRELLDLLDDGEEEVREL 78

                          90
                  ....*....|....
gi 1005575832  86 TATTIAAAQQQWED 99
Cdd:COG0789    79 LEEHLAELEAQIAE 92
 
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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