RNA-binding protein YhbY - Escherichia coli (strain K12)

Contribute

Send feedback

Read comments (?) or add your own

P0AGK4 (YHBY_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 70. History...

Clusters with 100%, 90%, 50% identity |

Documents (4) |

Third-party data

text xml rdf/xml gff fasta

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
RNA-binding protein YhbY

Gene names

Name:	yhbY
Ordered Locus Names:	b3180, JW3147

Organism

Escherichia coli (strain K12) [Reference proteome] [HAMAP]

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia ›

Protein attributes

Sequence length	97 AA.
Sequence status	Complete.
Protein existence	Evidence 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 component	Cytoplasm
Ligand	RNA-binding
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Cellular_component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	RNA binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 97

RNA-binding protein YhbY

PRO_0000202163

Regions

Domain

1 – 97

CRM

Secondary structure

Helix Strand Turn

Details...

Sequences

Sequence

Length

Mass (Da)

Tools

P0AGK4 [UniParc].

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

FASTA

10,784

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

        70         80         90 
LIVEAIVRET GACNVQVIGK TLVLYRPTKE RKISLPR

« Hide

References

	« Hide 'large scale' referencesShow '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 277:1453-1474(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.

PIR

F65108.

RefSeq

NP_417647.1. NC_000913.2.
YP_491365.1. NC_007779.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1LN4	X-ray	1.50	A	3-96	[»]

ProteinModelPortal

P0AGK4.

SMR

P0AGK4. Positions 1-96.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-47893N.

IntAct

P0AGK4. 38 interactions.

MINT

MINT-1224994.

STRING

511145.b3180.

Proteomic databases

PaxDb

P0AGK4.

PRIDE

P0AGK4.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblBacteria

AAC76212; AAC76212; b3180.
BAE77224; BAE77224; BAE77224.

GeneID

12932801.
947688.

KEGG

ecj:Y75_p3100.
eco:b3180.

PATRIC

32121778. VBIEscCol129921_3273.

Organism-specific databases

EchoBASE

EB2646.

EcoGene

EG12794. yhbY.

Phylogenomic databases

eggNOG

COG1534.

HOGENOM

HOG000016279.

K07574.

OMA

NKQLSNV.

ProtClustDB

PRK10343.

Enzyme and pathway databases

BioCyc

EcoCyc:EG12794-MONOMER.
ECOL316407:JW3147-MONOMER.

Gene expression databases

Genevestigator

P0AGK4.

Family and domain databases

Gene3D

3.30.110.60. 1 hit.

InterPro

IPR001890. RNA-binding_CRM.
IPR017924. RNA-binding_YhbY.
[Graphical view]

Pfam

PF01985. CRS1_YhbY. 1 hit.
[Graphical view]

ProDom

PD010559. RNA-binding_CRM. 1 hit.
[Graphical view] [Entries sharing at least one domain]

SMART

SM01103. CRS1_YhbY. 1 hit.
[Graphical view]

SUPFAM

SSF75471. CRS1_YhbY. 1 hit.

TIGRFAMs

TIGR00253. RNA_bind_YhbY. 1 hit.

PROSITE

PS51295. CRM. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

P0AGK4.

Entry information

Entry name

YHBY_ECOLI

Accession

Primary (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:	May 1, 2013
This is version 70 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program

Relevant documents

Uncharacterized protein families (UPF)

List of uncharacterized protein family (UPF) entries

Escherichia coli

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

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents