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P0AGK4

- YHBY_ECOLI

UniProt

P0AGK4 - YHBY_ECOLI

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Protein

RNA-binding protein YhbY

Gene

yhbY

Organism
Escherichia coli (strain K12)
Status
Reviewed - Annotation score: 2 out of 5- Experimental evidence at protein leveli

Functioni

GO - Molecular functioni

  1. RNA binding Source: UniProtKB-KW
Complete GO annotation...

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

BioCyciEcoCyc:EG12794-MONOMER.
ECOL316407:JW3147-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
RNA-binding protein YhbY
Gene namesi
Name:yhbY
Ordered Locus Names:b3180, JW3147
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000000318: Chromosome, UP000000625: Chromosome

Organism-specific databases

EcoGeneiEG12794. yhbY.

Subcellular locationi

Cytoplasm 1 Publication
Note: Has been seen to comigrate with the 50S ribosomal subunit in sucrose gradients.

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 9797RNA-binding protein YhbYPRO_0000202163Add
BLAST

Proteomic databases

PaxDbiP0AGK4.
PRIDEiP0AGK4.

Expressioni

Gene expression databases

GenevestigatoriP0AGK4.

Interactioni

Protein-protein interaction databases

DIPiDIP-47893N.
IntActiP0AGK4. 39 interactions.
MINTiMINT-1224994.
STRINGi511145.b3180.

Structurei

Secondary structure

1
97
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi5 – 1511
Beta strandi21 – 244
Helixi31 – 4414
Beta strandi45 – 517
Helixi56 – 7015
Beta strandi73 – 786
Beta strandi81 – 855

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1LN4X-ray1.50A3-97[»]
ProteinModelPortaliP0AGK4.
SMRiP0AGK4. Positions 1-96.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0AGK4.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1 – 9797CRMPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 CRM domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiCOG1534.
HOGENOMiHOG000016279.
InParanoidiP0AGK4.
KOiK07574.
OMAiRPSNEPK.
OrthoDBiEOG6SBT94.
PhylomeDBiP0AGK4.

Family and domain databases

Gene3Di3.30.110.60. 1 hit.
InterProiIPR001890. RNA-binding_CRM.
IPR017924. RNA-binding_YhbY.
[Graphical view]
PfamiPF01985. CRS1_YhbY. 1 hit.
[Graphical view]
ProDomiPD010559. RNA-binding_CRM. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SMARTiSM01103. CRS1_YhbY. 1 hit.
[Graphical view]
SUPFAMiSSF75471. SSF75471. 1 hit.
TIGRFAMsiTIGR00253. RNA_bind_YhbY. 1 hit.
PROSITEiPS51295. CRM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P0AGK4-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MNLSTKQKQH LKGLAHPLKP VVLLGSNGLT EGVLAEIEQA LEHHELIKVK
60 70 80 90
IATEDRETKT LIVEAIVRET GACNVQVIGK TLVLYRPTKE RKISLPR
Length:97
Mass (Da):10,784
Last modified:December 20, 2005 - v1
Checksum:i52B4F7AD4C203382
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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.
PIRiF65108.
RefSeqiNP_417647.1. NC_000913.3.
YP_491365.1. NC_007779.1.

Genome annotation databases

EnsemblBacteriaiAAC76212; AAC76212; b3180.
BAE77224; BAE77224; BAE77224.
GeneIDi12932801.
947688.
KEGGiecj:Y75_p3100.
eco:b3180.
PATRICi32121778. VBIEscCol129921_3273.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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.
PIRi F65108.
RefSeqi NP_417647.1. NC_000913.3.
YP_491365.1. NC_007779.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1LN4 X-ray 1.50 A 3-97 [» ]
ProteinModelPortali P0AGK4.
SMRi P0AGK4. Positions 1-96.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

DIPi DIP-47893N.
IntActi P0AGK4. 39 interactions.
MINTi MINT-1224994.
STRINGi 511145.b3180.

Proteomic databases

PaxDbi P0AGK4.
PRIDEi P0AGK4.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAC76212 ; AAC76212 ; b3180 .
BAE77224 ; BAE77224 ; BAE77224 .
GeneIDi 12932801.
947688.
KEGGi ecj:Y75_p3100.
eco:b3180.
PATRICi 32121778. VBIEscCol129921_3273.

Organism-specific databases

EchoBASEi EB2646.
EcoGenei EG12794. yhbY.

Phylogenomic databases

eggNOGi COG1534.
HOGENOMi HOG000016279.
InParanoidi P0AGK4.
KOi K07574.
OMAi RPSNEPK.
OrthoDBi EOG6SBT94.
PhylomeDBi P0AGK4.

Enzyme and pathway databases

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

Miscellaneous databases

EvolutionaryTracei P0AGK4.
PROi P0AGK4.

Gene expression databases

Genevestigatori P0AGK4.

Family and domain databases

Gene3Di 3.30.110.60. 1 hit.
InterProi IPR001890. RNA-binding_CRM.
IPR017924. RNA-binding_YhbY.
[Graphical view ]
Pfami PF01985. CRS1_YhbY. 1 hit.
[Graphical view ]
ProDomi PD010559. RNA-binding_CRM. 1 hit.
[Graphical view ] [Entries sharing at least one domain ]
SMARTi SM01103. CRS1_YhbY. 1 hit.
[Graphical view ]
SUPFAMi SSF75471. SSF75471. 1 hit.
TIGRFAMsi TIGR00253. RNA_bind_YhbY. 1 hit.
PROSITEi PS51295. CRM. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  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. 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.

Entry informationi

Entry nameiYHBY_ECOLI
AccessioniPrimary (citable) accession number: P0AGK4
Secondary accession number(s): P42550, Q2M932
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 20, 2005
Last sequence update: December 20, 2005
Last modified: October 29, 2014
This is version 81 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families
  4. Uncharacterized protein families (UPF)
    List of uncharacterized protein family (UPF) entries

External Data

Dasty 3