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Protein

HTH-type transcriptional regulator RcdA

Gene

rcdA

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Regulates the expression of a number of genes involved in biofilm formation and stress response. Target genes include six stress-response transcriptional regulators: csgD, which is a master regulator of biofilm formation, appY, sxy, ycgF, fimB and rcdA itself. This indicates that a large number of genes must be regulated indirectly via these transcriptional regulators. Acts by binding to the upstream region of its target genes.1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi30 – 4920H-T-H motifPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

  • regulation of transcription, DNA-templated Source: GO_Central
  • transcription, DNA-templated Source: EcoCyc
Complete GO annotation...

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciEcoCyc:G6444-MONOMER.
ECOL316407:JW5114-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
HTH-type transcriptional regulator RcdA
Alternative name(s):
Regulator of csgD
Gene namesi
Name:rcdA
Synonyms:ybjK
Ordered Locus Names:b0846, JW5114
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG13680. rcdA.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 178178HTH-type transcriptional regulator RcdAPRO_0000070634Add
BLAST

Proteomic databases

PaxDbiP75811.
PRIDEiP75811.

Expressioni

Inductioni

Autoregulated.1 Publication

Interactioni

Protein-protein interaction databases

BioGridi4262832. 5 interactions.
STRINGi511145.b0846.

Structurei

3D structure databases

ProteinModelPortaliP75811.
SMRiP75811. Positions 6-176.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini7 – 6761HTH tetR-typePROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 HTH tetR-type DNA-binding domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiENOG4108RFG. Bacteria.
COG3226. LUCA.
HOGENOMiHOG000042836.
InParanoidiP75811.
OMAiRKIASCA.
OrthoDBiEOG60PHBK.
PhylomeDBiP75811.

Family and domain databases

Gene3Di1.10.357.10. 1 hit.
InterProiIPR009057. Homeodomain-like.
IPR001647. HTH_TetR.
IPR015893. Tet_transcr_reg_TetR-like_C.
IPR011075. Tet_transcr_reg_TetR-rel_C.
[Graphical view]
PfamiPF00440. TetR_N. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
SSF48498. SSF48498. 1 hit.
PROSITEiPS50977. HTH_TETR_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P75811-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRRANDPQRR EKIIQATLEA VKLYGIHAVT HRKIATLAGV PLGSMTYYFS
60 70 80 90 100
GIDELLLEAF SSFTEIMSRQ YQAFFSDVSD APGACQAITD MIYSSQVATP
110 120 130 140 150
DNMELMYQLY ALASRKPLLK TVMQNWMQRS QQTLEQWFEP GTARALDAFI
160 170
EGMTLHFVTD RKPLSREEIL RMVERVAG
Length:178
Mass (Da):20,307
Last modified:March 27, 2002 - v3
Checksum:iB65B725AD11F45CB
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC73933.1.
AP009048 Genomic DNA. Translation: BAA35550.2.
PIRiF64822.
RefSeqiNP_415367.1. NC_000913.3.
WP_001295289.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC73933; AAC73933; b0846.
BAA35550; BAA35550; BAA35550.
GeneIDi945473.
KEGGiecj:JW5114.
eco:b0846.
PATRICi32116897. VBIEscCol129921_0874.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC73933.1.
AP009048 Genomic DNA. Translation: BAA35550.2.
PIRiF64822.
RefSeqiNP_415367.1. NC_000913.3.
WP_001295289.1. NZ_LN832404.1.

3D structure databases

ProteinModelPortaliP75811.
SMRiP75811. Positions 6-176.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4262832. 5 interactions.
STRINGi511145.b0846.

Proteomic databases

PaxDbiP75811.
PRIDEiP75811.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC73933; AAC73933; b0846.
BAA35550; BAA35550; BAA35550.
GeneIDi945473.
KEGGiecj:JW5114.
eco:b0846.
PATRICi32116897. VBIEscCol129921_0874.

Organism-specific databases

EchoBASEiEB3444.
EcoGeneiEG13680. rcdA.

Phylogenomic databases

eggNOGiENOG4108RFG. Bacteria.
COG3226. LUCA.
HOGENOMiHOG000042836.
InParanoidiP75811.
OMAiRKIASCA.
OrthoDBiEOG60PHBK.
PhylomeDBiP75811.

Enzyme and pathway databases

BioCyciEcoCyc:G6444-MONOMER.
ECOL316407:JW5114-MONOMER.

Miscellaneous databases

PROiP75811.

Family and domain databases

Gene3Di1.10.357.10. 1 hit.
InterProiIPR009057. Homeodomain-like.
IPR001647. HTH_TetR.
IPR015893. Tet_transcr_reg_TetR-like_C.
IPR011075. Tet_transcr_reg_TetR-rel_C.
[Graphical view]
PfamiPF00440. TetR_N. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
SSF48498. SSF48498. 1 hit.
PROSITEiPS50977. HTH_TETR_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  3. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  4. "A novel regulator RcdA of the csgD gene encoding the master regulator of biofilm formation in Escherichia coli."
    Shimada T., Katayama Y., Kawakita S., Ogasawara H., Nakano M., Yamamoto K., Ishihama A.
    MicrobiologyOpen 1:381-394(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DNA-BINDING, INDUCTION, GENE NAME.

Entry informationi

Entry nameiRCDA_ECOLI
AccessioniPrimary (citable) accession number: P75811
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 27, 2002
Last sequence update: March 27, 2002
Last modified: July 6, 2016
This is version 119 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

Has a strong cooperative DNA-binding mode, leading to aggregation of RcdA-DNA complexes.1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.