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P0AGK4 (YHBY_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 79. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (4) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
RNA-binding protein YhbY
Gene names
Name:yhbY
Ordered Locus Names:b3180, JW3147
OrganismEscherichia coli (strain K12) [Reference proteome] [HAMAP]
Taxonomic identifier83333 [NCBI]
Taxonomic lineageBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia

Protein attributes

Sequence length97 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Subcellular location

Cytoplasm. Note: Has been seen to comigrate with the 50S ribosomal subunit in sucrose gradients. Ref.5

Sequence similarities

Contains 1 CRM domain.

Ontologies

Keywords
   Cellular componentCytoplasm
   LigandRNA-binding
   Technical term3D-structure
Complete proteome
Reference proteome
Gene Ontology (GO)
   Cellular_componentcytoplasm

Inferred from electronic annotation. Source: UniProtKB-SubCell

   Molecular_functionRNA binding

Inferred from electronic annotation. Source: UniProtKB-KW

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 9797RNA-binding protein YhbY
PRO_0000202163

Regions

Domain1 – 9797CRM

Secondary structure

.............. 97
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P0AGK4 [UniParc].

Last modified December 20, 2005. Version 1.
Checksum: 52B4F7AD4C203382

FASTA9710,784
        10         20         30         40         50         60 
MNLSTKQKQH LKGLAHPLKP VVLLGSNGLT EGVLAEIEQA LEHHELIKVK IATEDRETKT 

        70         80         90 
LIVEAIVRET GACNVQVIGK TLVLYRPTKE RKISLPR 

« Hide

References

« Hide 'large scale' references
[1]"Identification and physical analysis of new genes in the argG region (69 min) of Escherichia coli chromosome."
Wang R., Kushner S.R.
Submitted (SEP-1993) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: K12.
[2]"The complete genome sequence of Escherichia coli K-12."
Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y.
Science 277:1453-1462(1997) [PubMed] [Europe PMC] [Abstract]
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]"The nucleotide sequence of greA, a suppressor gene that restores growth of an Escherichia coli RNA polymerase mutant at high temperature."
Sparkowski J., Das A.
Nucleic Acids Res. 18:6443-6443(1990) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 64-97.
[5]"The Escherichia coli GTPase CgtAE is involved in late steps of large ribosome assembly."
Jiang M., Datta K., Walker A., Strahler J., Bagamasbad P., Andrews P.C., Maddock J.R.
J. Bacteriol. 188:6757-6770(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION BY MASS SPECTROMETRY, SUBCELLULAR LOCATION, ASSOCIATION WITH THE 50S RIBOSOMAL SUBUNIT.
Strain: K12 / MG1655 / ATCC 47076.
[6]"Crystal structure of E. coli YhbY: a representative of a novel class of RNA binding proteins."
Ostheimer G.J., Barkan A., Matthews B.W.
Structure 10:1593-1601(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (1.5 ANGSTROMS) OF 5-104.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
U01376 Genomic DNA. No translation available.
U18997 Genomic DNA. Translation: AAA57981.1.
U00096 Genomic DNA. Translation: AAC76212.1.
AP009048 Genomic DNA. Translation: BAE77224.1.
X54718 Genomic DNA. No translation available.
PIRF65108.
RefSeqNP_417647.1. NC_000913.3.
YP_491365.1. NC_007779.1.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1LN4X-ray1.50A3-97[»]
ProteinModelPortalP0AGK4.
SMRP0AGK4. Positions 1-96.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

DIPDIP-47893N.
IntActP0AGK4. 39 interactions.
MINTMINT-1224994.
STRING511145.b3180.

Proteomic databases

PaxDbP0AGK4.
PRIDEP0AGK4.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAC76212; AAC76212; b3180.
BAE77224; BAE77224; BAE77224.
GeneID12932801.
947688.
KEGGecj:Y75_p3100.
eco:b3180.
PATRIC32121778. VBIEscCol129921_3273.

Organism-specific databases

EchoBASEEB2646.
EcoGeneEG12794. yhbY.

Phylogenomic databases

eggNOGCOG1534.
HOGENOMHOG000016279.
KOK07574.
OMARPSNEPK.
OrthoDBEOG6SBT94.
PhylomeDBP0AGK4.

Enzyme and pathway databases

BioCycEcoCyc:EG12794-MONOMER.
ECOL316407:JW3147-MONOMER.

Gene expression databases

GenevestigatorP0AGK4.

Family and domain databases

Gene3D3.30.110.60. 1 hit.
InterProIPR001890. RNA-binding_CRM.
IPR017924. RNA-binding_YhbY.
[Graphical view]
PfamPF01985. CRS1_YhbY. 1 hit.
[Graphical view]
ProDomPD010559. RNA-binding_CRM. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SMARTSM01103. CRS1_YhbY. 1 hit.
[Graphical view]
SUPFAMSSF75471. SSF75471. 1 hit.
TIGRFAMsTIGR00253. RNA_bind_YhbY. 1 hit.
PROSITEPS51295. CRM. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceP0AGK4.
PROP0AGK4.

Entry information

Entry nameYHBY_ECOLI
AccessionPrimary (citable) accession number: P0AGK4
Secondary accession number(s): P42550, Q2M932
Entry history
Integrated into UniProtKB/Swiss-Prot: December 20, 2005
Last sequence update: December 20, 2005
Last modified: July 9, 2014
This is version 79 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

Uncharacterized protein families (UPF)

List of uncharacterized protein family (UPF) entries

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

Escherichia coli

Escherichia coli (strain K12): entries and cross-references to EcoGene