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Protein

Der GTPase-activating protein YihI

Gene

yihI

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

Functioni

A GTPase-activating protein (GAP) that modifies Der/EngA GTPase function, negatively regulating cell growth, probably via ribosome assembly. Stimulates the GTPase activity of Der; a construct missing the first 45 residues is even more stimulatory. Does not stimulate 2 other GTPases (ObgE and Era). Overexpression inhibits cell growth; precursor 16S rRNA accumulates, the 23S rRNA is 6-7 bases longer than usual, and 50S ribosomal subunits are improperly assembled, leading to 45S subunits lacking proteins L9, L18 and L25. Overexpression of Der in the same cells suppresses the 50S subunit assembly defect, corroborating that YihI and Der interact.1 Publication

GO - Molecular functioni

GO - Biological processi

  • negative regulation of ribosome biogenesis Source: EcoCyc
  • positive regulation of GTPase activity Source: EcoCyc
  • ribosome biogenesis Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

GTPase activation

Keywords - Biological processi

Ribosome biogenesis

Enzyme and pathway databases

BioCyciEcoCyc:EG11835-MONOMER.
ECOL316407:JW3837-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Der GTPase-activating protein YihI
Short name:
GAP
Gene namesi
Name:yihI
Ordered Locus Names:b3866, JW3837
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG11835. yihI.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: EcoCyc
Complete GO annotation...

Pathology & Biotechi

Disruption phenotypei

Dispensable for cell growth, cells lacking this gene have a shorter lag phase.1 Publication

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi65 – 651R → A: No change in ability to stimulate Der GTPase. 1 Publication
Mutagenesisi135 – 1351R → A: No change in ability to stimulate Der GTPase. 1 Publication
Mutagenesisi164 – 1641R → A: No change in ability to stimulate Der GTPase. 1 Publication
Mutagenesisi167 – 1671R → A: No change in ability to stimulate Der GTPase. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 169169Der GTPase-activating protein YihIPRO_0000209582Add
BLAST

Proteomic databases

EPDiP0A8H6.
PaxDbiP0A8H6.
PRIDEiP0A8H6.

Expressioni

Inductioni

Highly expressed during the lag phase, not expressed in later phases.1 Publication

Interactioni

Subunit structurei

Homodimer. Interacts with Der/EngA via the last 78 residues. Interaction with Der occurs at a 1:1 stoichiometry, suggesting the dimer dissociates to interact with Der.1 Publication

Protein-protein interaction databases

BioGridi4262990. 15 interactions.
DIPiDIP-47963N.
IntActiP0A8H6. 28 interactions.
MINTiMINT-1218965.
STRINGi511145.b3866.

Structurei

3D structure databases

ProteinModelPortaliP0A8H6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1 – 4545Not required for interaction with Der/EngaAdd
BLAST
Regioni17 – 4529Arg/Lys richAdd
BLAST
Regioni148 – 15710Asp/Glu rich

Sequence similaritiesi

Belongs to the YihI family.Curated

Phylogenomic databases

eggNOGiENOG4105ZR3. Bacteria.
COG3078. LUCA.
HOGENOMiHOG000002380.
KOiK09894.
OMAiENNECLN.
OrthoDBiEOG615VKS.

Family and domain databases

HAMAPiMF_01058. GAP_YihI.
InterProiIPR007336. Der_GTPase_activator.
[Graphical view]
PfamiPF04220. YihI. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P0A8H6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKPSSSNSRS KGHAKARRKT REELDQEARD RKRQKKRRGH APGSRAAGGN
60 70 80 90 100
TTSGSKGQNA PKDPRIGSKT PIPLGVTEKV TKQHKPKSEK PMLSPQAELE
110 120 130 140 150
LLETDERLDA LLERLEAGET LSAEEQSWVD AKLDRIDELM QKLGLSYDDD
160
EEEEEDEKQE DMMRLLRGN
Length:169
Mass (Da):19,059
Last modified:June 7, 2005 - v1
Checksum:i31C1DF0C07AD9D07
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D16509 Genomic DNA. Translation: BAA03960.1.
L19201 Genomic DNA. Translation: AAB03000.1.
U00096 Genomic DNA. Translation: AAC76863.1.
AP009048 Genomic DNA. Translation: BAE77443.1.
PIRiS40811.
RefSeqiNP_418302.1. NC_000913.3.
WP_001295266.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC76863; AAC76863; b3866.
BAE77443; BAE77443; BAE77443.
GeneIDi948363.
KEGGiecj:JW3837.
eco:b3866.
PATRICi32123231. VBIEscCol129921_3976.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D16509 Genomic DNA. Translation: BAA03960.1.
L19201 Genomic DNA. Translation: AAB03000.1.
U00096 Genomic DNA. Translation: AAC76863.1.
AP009048 Genomic DNA. Translation: BAE77443.1.
PIRiS40811.
RefSeqiNP_418302.1. NC_000913.3.
WP_001295266.1. NZ_LN832404.1.

3D structure databases

ProteinModelPortaliP0A8H6.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4262990. 15 interactions.
DIPiDIP-47963N.
IntActiP0A8H6. 28 interactions.
MINTiMINT-1218965.
STRINGi511145.b3866.

Proteomic databases

EPDiP0A8H6.
PaxDbiP0A8H6.
PRIDEiP0A8H6.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC76863; AAC76863; b3866.
BAE77443; BAE77443; BAE77443.
GeneIDi948363.
KEGGiecj:JW3837.
eco:b3866.
PATRICi32123231. VBIEscCol129921_3976.

Organism-specific databases

EchoBASEiEB1781.
EcoGeneiEG11835. yihI.

Phylogenomic databases

eggNOGiENOG4105ZR3. Bacteria.
COG3078. LUCA.
HOGENOMiHOG000002380.
KOiK09894.
OMAiENNECLN.
OrthoDBiEOG615VKS.

Enzyme and pathway databases

BioCyciEcoCyc:EG11835-MONOMER.
ECOL316407:JW3837-MONOMER.

Miscellaneous databases

PROiP0A8H6.

Family and domain databases

HAMAPiMF_01058. GAP_YihI.
InterProiIPR007336. Der_GTPase_activator.
[Graphical view]
PfamiPF04220. YihI. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Wachi M., Hamano-Takaku F., Nagano K., Kobayashi M., Yukawa H., Nagai K.
    Submitted (SEP-1994) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  2. "Analysis of the Escherichia coli genome. III. DNA sequence of the region from 87.2 to 89.2 minutes."
    Plunkett G. III, Burland V., Daniels D.L., Blattner F.R.
    Nucleic Acids Res. 21:3391-3398(1993) [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. "A bacterial GAP-like protein, YihI, regulating the GTPase of Der, an essential GTP-binding protein in Escherichia coli."
    Hwang J., Inouye M.
    J. Mol. Biol. 399:759-772(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION IN LARGE RIBOSOMAL SUBUNIT ASSEMBLY, SUBUNIT, INTERACTION WITH DER/ENGA, INDUCTION, MUTAGENESIS OF ARG-65; ARG-135; ARG-164 AND ARG-167, DISRUPTION PHENOTYPE.

Entry informationi

Entry nameiYIHI_ECOLI
AccessioniPrimary (citable) accession number: P0A8H6
Secondary accession number(s): P32130, Q2M8G3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 7, 2005
Last sequence update: June 7, 2005
Last modified: July 6, 2016
This is version 83 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

This is a highly hydrophilic protein; there is a stretch of highly charged residues in the N-terminus and a stretch of acidic residues in the C-terminus.

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
  3. Uncharacterized protein families (UPF)
    List of uncharacterized protein family (UPF) entries

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.