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Protein

Ribosome hibernation promoting factor

Gene

hpf

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

During stationary phase, promotes and stabilizes dimerization of 70S ribosomes by the ribosome modulation factor (RMF), leading to the formation of inactive 100S ribosomes (PubMed:18174192). Converts immature 90S particles formed by RMF into 100S ribosomes (PubMed:16324148). Crystallization with T.thermophilus 70S ribosomes shows it binds in the channel between the head and body of the 30S subunit, where mRNA, tRNAs, initiation factors IF1 and IF3 and elongation factor G would bind; however RMF is still able to bind (PubMed:22605777). In this crystal binding of HPF induces movement of the 30S head domain away from the rest of the ribosome, presumably so they would more easily form dimers (PubMed:22605777). May also function as a potential translational inhibitor (PubMed:18174192).5 Publications

GO - Molecular functioni

  • ribosomal small subunit binding Source: EcoCyc
  • ribosome binding Source: EcoCyc

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Translation regulation

Enzyme and pathway databases

BioCyciEcoCyc:EG11681-MONOMER.
ECOL316407:JW3170-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribosome hibernation promoting factor1 Publication
Short name:
HPF1 Publication
Alternative name(s):
Hibernation factor HPF1 Publication
Gene namesi
Name:hpf1 Publication
Synonyms:yhbH
Ordered Locus Names:b3203, JW3170
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG11681. hpf.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: EcoCyc
  • cytosolic small ribosomal subunit Source: GO_Central
Complete GO annotation...

Pathology & Biotechi

Disruption phenotypei

Non-essential gene, no formation of inactive 100S ribosomes. Double hpf-yfiA deletion mutants form 90S ribosomes (PubMed:16324148). A quadruple yfiA-hpf-rmf-sra knockout strain is significantly outcompeted by wild-type after 4 days growth (PubMed:17277072). No change in sensitivity to aminoglycoside antiobiotic gentamicin in stationary phase cultures (PubMed:26324267).3 Publications

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000974171 – 95Ribosome hibernation promoting factorAdd BLAST95

Proteomic databases

PaxDbiP0AFX0.
PRIDEiP0AFX0.

Expressioni

Inductioni

Induced during stationary growth phase (at protein level) (PubMed:11168583). Induced by the signal autoinducer AI-2 (PubMed:11514505).2 Publications

Interactioni

Subunit structurei

Associates exclusively with 100S ribosomes, which are dimers of 70S ribosomes.2 Publications

Protein-protein interaction databases

BioGridi4259283. 8 interactors.
DIPiDIP-48273N.
IntActiP0AFX0. 4 interactors.
MINTiMINT-1249576.
STRINGi511145.b3203.

Structurei

Secondary structure

195
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi2 – 10Combined sources9
Helixi14 – 28Combined sources15
Beta strandi35 – 43Combined sources9
Beta strandi48 – 56Combined sources9
Beta strandi59 – 69Combined sources11
Helixi70 – 92Combined sources23

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2RQLNMR-A1-95[»]
4V8HX-ray3.10AX/CX1-95[»]
ProteinModelPortaliP0AFX0.
SMRiP0AFX0.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0AFX0.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG41080QH. Bacteria.
COG1544. LUCA.
HOGENOMiHOG000264773.
InParanoidiP0AFX0.
KOiK05808.
OMAiNLTGHHI.
PhylomeDBiP0AFX0.

Family and domain databases

CDDicd00552. RaiA. 1 hit.
Gene3Di3.30.160.100. 1 hit.
InterProiIPR003489. Ribosomal_S30Ae/sigma54_mod.
[Graphical view]
PfamiPF02482. Ribosomal_S30AE. 1 hit.
[Graphical view]
SUPFAMiSSF69754. SSF69754. 1 hit.
TIGRFAMsiTIGR00741. yfiA. 1 hit.

Sequencei

Sequence statusi: Complete.

P0AFX0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQLNITGNNV EITEALREFV TAKFAKLEQY FDRINQVYVV LKVEKVTHTS
60 70 80 90
DATLHVNGGE IHASAEGQDM YAAIDGLIDK LARQLTKHKD KLKQH
Length:95
Mass (Da):10,750
Last modified:December 20, 2005 - v1
Checksum:i5B8F737E6E3A91AE
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D12938 Genomic DNA. Translation: BAA02316.1.
Z27094 Genomic DNA. Translation: CAA81618.1.
U12684 Genomic DNA. Translation: AAB60164.1.
U18997 Genomic DNA. Translation: AAA58005.1.
U00096 Genomic DNA. Translation: AAC76235.1.
AP009048 Genomic DNA. Translation: BAE77247.1.
PIRiI76719.
RefSeqiNP_417670.1. NC_000913.3.
WP_001176599.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC76235; AAC76235; b3203.
BAE77247; BAE77247; BAE77247.
GeneIDi947718.
KEGGiecj:JW3170.
eco:b3203.
PATRICi32121826. VBIEscCol129921_3297.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D12938 Genomic DNA. Translation: BAA02316.1.
Z27094 Genomic DNA. Translation: CAA81618.1.
U12684 Genomic DNA. Translation: AAB60164.1.
U18997 Genomic DNA. Translation: AAA58005.1.
U00096 Genomic DNA. Translation: AAC76235.1.
AP009048 Genomic DNA. Translation: BAE77247.1.
PIRiI76719.
RefSeqiNP_417670.1. NC_000913.3.
WP_001176599.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2RQLNMR-A1-95[»]
4V8HX-ray3.10AX/CX1-95[»]
ProteinModelPortaliP0AFX0.
SMRiP0AFX0.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4259283. 8 interactors.
DIPiDIP-48273N.
IntActiP0AFX0. 4 interactors.
MINTiMINT-1249576.
STRINGi511145.b3203.

Proteomic databases

PaxDbiP0AFX0.
PRIDEiP0AFX0.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC76235; AAC76235; b3203.
BAE77247; BAE77247; BAE77247.
GeneIDi947718.
KEGGiecj:JW3170.
eco:b3203.
PATRICi32121826. VBIEscCol129921_3297.

Organism-specific databases

EchoBASEiEB1632.
EcoGeneiEG11681. hpf.

Phylogenomic databases

eggNOGiENOG41080QH. Bacteria.
COG1544. LUCA.
HOGENOMiHOG000264773.
InParanoidiP0AFX0.
KOiK05808.
OMAiNLTGHHI.
PhylomeDBiP0AFX0.

Enzyme and pathway databases

BioCyciEcoCyc:EG11681-MONOMER.
ECOL316407:JW3170-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP0AFX0.
PROiP0AFX0.

Family and domain databases

CDDicd00552. RaiA. 1 hit.
Gene3Di3.30.160.100. 1 hit.
InterProiIPR003489. Ribosomal_S30Ae/sigma54_mod.
[Graphical view]
PfamiPF02482. Ribosomal_S30AE. 1 hit.
[Graphical view]
SUPFAMiSSF69754. SSF69754. 1 hit.
TIGRFAMsiTIGR00741. yfiA. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiHPF_ECOLI
AccessioniPrimary (citable) accession number: P0AFX0
Secondary accession number(s): P31221, Q2M909
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 20, 2005
Last sequence update: December 20, 2005
Last modified: November 2, 2016
This is version 85 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, Direct protein sequencing, 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

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.