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Protein

HTH-type transcriptional regulator RpiR

Gene

rpiR

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

Functioni

Regulatory protein involved in rpiB gene repression. Also involved in als operon repression.1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi50 – 6920H-T-H motifPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. carbohydrate binding Source: InterPro
  2. DNA binding Source: UniProtKB-KW
  3. sequence-specific DNA binding transcription factor activity Source: InterPro

GO - Biological processi

  1. carbohydrate metabolic process Source: InterPro
  2. negative regulation of transcription, DNA-templated Source: EcoCyc
  3. transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciEcoCyc:G7821-MONOMER.
ECOL316407:JW4050-MONOMER.
RETL1328306-WGS:GSTH-5049-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
HTH-type transcriptional regulator RpiR
Alternative name(s):
Als operon repressor
Gene namesi
Name:rpiR
Synonyms:alsR, yjcY
Ordered Locus Names:b4089, JW4050
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000000318: Chromosome, UP000000625: Chromosome

Organism-specific databases

EcoGeneiEG12459. rpiR.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 296296HTH-type transcriptional regulator RpiRPRO_0000068620Add
BLAST

Proteomic databases

PRIDEiP0ACS7.

Expressioni

Gene expression databases

GenevestigatoriP0ACS7.

Interactioni

Protein-protein interaction databases

IntActiP0ACS7. 5 interactions.
STRINGi511145.b4089.

Structurei

3D structure databases

ProteinModelPortaliP0ACS7.
SMRiP0ACS7. Positions 20-287.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini14 – 9077HTH rpiR-typePROSITE-ProRule annotationAdd
BLAST
Domaini134 – 274141SISPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG1737.
HOGENOMiHOG000027157.
InParanoidiP0ACS7.
OMAiAHKFLRI.
OrthoDBiEOG6HMXHM.
PhylomeDBiP0ACS7.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
InterProiIPR009057. Homeodomain-like.
IPR000281. HTH_RpiR.
IPR001347. SIS.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF01418. HTH_6. 1 hit.
PF01380. SIS. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
PROSITEiPS51071. HTH_RPIR. 1 hit.
PS51464. SIS. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P0ACS7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSQSEFDSAL PNGIGLAPYL RMKQEGMTEN ESRIVEWLLK PGNLSCAPAI
60 70 80 90 100
KDVAEALAVS EAMIVKVSKL LGFSGFRNLR SALEDYFSQS EQVLPSELAF
110 120 130 140 150
DEAPQDVVNK VFNITLRTIM EGQSIVNVDE IHRAARFFYQ ARQRDLYGAG
160 170 180 190 200
GSNAICADVQ HKFLRIGVRC QAYPDAHIMM MSASLLQEGD VVLVVTHSGR
210 220 230 240 250
TSDVKAAVEL AKKNGAKIIC ITHSYHSPIA KLADYIICSP APETPLLGRN
260 270 280 290
ASARILQLTL LDAFFVSVAQ LNIEQANINM QKTGAIVDFF SPGALK
Length:296
Mass (Da):32,362
Last modified:November 22, 2005 - v1
Checksum:i7946848F0798E200
GO

Sequence cautioni

The sequence AAA96988.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X82203 Genomic DNA. Translation: CAA57687.1.
U14003 Genomic DNA. Translation: AAA96988.1. Different initiation.
U00096 Genomic DNA. Translation: AAC77050.2.
AP009048 Genomic DNA. Translation: BAE78092.1.
PIRiS56317.
RefSeqiNP_418513.4. NC_000913.3.
YP_492233.1. NC_007779.1.

Genome annotation databases

EnsemblBacteriaiAAC77050; AAC77050; b4089.
BAE78092; BAE78092; BAE78092.
GeneIDi12933688.
948603.
KEGGiecj:Y75_p3977.
eco:b4089.
PATRICi32123735. VBIEscCol129921_4216.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X82203 Genomic DNA. Translation: CAA57687.1.
U14003 Genomic DNA. Translation: AAA96988.1. Different initiation.
U00096 Genomic DNA. Translation: AAC77050.2.
AP009048 Genomic DNA. Translation: BAE78092.1.
PIRiS56317.
RefSeqiNP_418513.4. NC_000913.3.
YP_492233.1. NC_007779.1.

3D structure databases

ProteinModelPortaliP0ACS7.
SMRiP0ACS7. Positions 20-287.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiP0ACS7. 5 interactions.
STRINGi511145.b4089.

Proteomic databases

PRIDEiP0ACS7.

Protocols and materials databases

DNASUi948603.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC77050; AAC77050; b4089.
BAE78092; BAE78092; BAE78092.
GeneIDi12933688.
948603.
KEGGiecj:Y75_p3977.
eco:b4089.
PATRICi32123735. VBIEscCol129921_4216.

Organism-specific databases

EchoBASEiEB2353.
EcoGeneiEG12459. rpiR.

Phylogenomic databases

eggNOGiCOG1737.
HOGENOMiHOG000027157.
InParanoidiP0ACS7.
OMAiAHKFLRI.
OrthoDBiEOG6HMXHM.
PhylomeDBiP0ACS7.

Enzyme and pathway databases

BioCyciEcoCyc:G7821-MONOMER.
ECOL316407:JW4050-MONOMER.
RETL1328306-WGS:GSTH-5049-MONOMER.

Miscellaneous databases

PROiP0ACS7.

Gene expression databases

GenevestigatoriP0ACS7.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
InterProiIPR009057. Homeodomain-like.
IPR000281. HTH_RpiR.
IPR001347. SIS.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF01418. HTH_6. 1 hit.
PF01380. SIS. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
PROSITEiPS51071. HTH_RPIR. 1 hit.
PS51464. SIS. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Ribose catabolism of Escherichia coli: characterization of the rpiB gene encoding ribose phosphate isomerase B and of the rpiR gene, which is involved in regulation of rpiB expression."
    Soerensen K.I., Hove-Jensen B.
    J. Bacteriol. 178:1003-1011(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: K12.
  2. "Analysis of the Escherichia coli genome VI: DNA sequence of the region from 92.8 through 100 minutes."
    Burland V.D., Plunkett G. III, Sofia H.J., Daniels D.L., Blattner F.R.
    Nucleic Acids Res. 23:2105-2119(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  4. "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.
  5. "The D-allose operon of Escherichia coli K-12."
    Kim C., Song S., Park C.
    J. Bacteriol. 179:7631-7637(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION IN ALS REPRESSION.

Entry informationi

Entry nameiRPIR_ECOLI
AccessioniPrimary (citable) accession number: P0ACS7
Secondary accession number(s): P39266, P76791, Q2M6L4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 22, 2005
Last sequence update: November 22, 2005
Last modified: January 7, 2015
This is version 76 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

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

External Data

Dasty 3

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 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.