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VBP1 VHL binding protein 1 [ Homo sapiens (human) ]

Gene ID: 7411, updated on 10-Oct-2019

Summary

Official Symbol
VBP1provided by HGNC
Official Full Name
VHL binding protein 1provided by HGNC
Primary source
HGNC:HGNC:12662
See related
Ensembl:ENSG00000155959 MIM:300133
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
PFD3; PFDN3; VBP-1; HIBBJ46
Summary
The protein encoded by this gene interacts with the Von Hippel-Lindau protein to form an intracellular complex. The encoded protein functions as a chaperone protein, and may play a role in the transport of the Von Hippel-Lindau protein from the perinuclear granules to the nucleus or cytoplasm. Alternative splicing and the use of alternate transcription start sites results in multiple transcript variants encoding different protein isoforms. [provided by RefSeq, Jan 2015]
Expression
Ubiquitous expression in brain (RPKM 27.3), heart (RPKM 18.7) and 25 other tissues See more
Orthologs

Genomic context

See VBP1 in Genome Data Viewer
Location:
Xq28
Exon count:
8
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) X NC_000023.11 (155197007..155239841)
105 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (154425290..154468098)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene BRCA1/BRCA2-containing complex subunit 3 Neighboring gene int1h-2 recombination region Neighboring gene Sharpr-MPRA regulatory region 7862 Neighboring gene RAB39B, member RAS oncogene family Neighboring gene chloride intracellular channel 2 Neighboring gene twinfilin 1 pseudogene 2

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
integrase gag-pol Systematic yeast two-hybrid screenings identify von Hippel-Lindau binding protein 1 (VBP1) as cellular binding partners of HIV-1 integrase PubMed
retropepsin gag-pol HIV-1 PR is identified to have a physical interaction with von Hippel-Lindau binding protein 1 (VBP1; PFD3) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
tubulin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
microtubule-based process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein folding IEA
Inferred from Electronic Annotation
more info
 
tubulin complex assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
nucleus IEA
Inferred from Electronic Annotation
more info
 
polysome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
prefoldin complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
prefoldin subunit 3
Names
von Hippel-Lindau binding protein 1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_013269.2 RefSeqGene

    Range
    24454..47835
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001303543.1NP_001290472.1  prefoldin subunit 3 isoform 2

    See identical proteins and their annotated locations for NP_001290472.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) initiates transcription at an alternate position and has a longer 5' terminal exon than variant 1. It initiates translation at an alternate start codon and the encoded isoform (2) has a longer N-terminus than isoform 1.
    Source sequence(s)
    AA626259, BC009570, BX682237, U96759
    UniProtKB/Swiss-Prot
    P61758
    UniProtKB/TrEMBL
    D3DWY7
    Conserved Domains (1) summary
    pfam02996
    Location:96216
    Prefoldin; Prefoldin subunit
  2. NM_001303544.1NP_001290473.1  prefoldin subunit 3 isoform 3

    See identical proteins and their annotated locations for NP_001290473.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (3) has a distinct N-terminus and is shorter than isoform 1.
    Source sequence(s)
    AA626259, AK301646, BC009570
    Consensus CDS
    CCDS78525.1
    UniProtKB/TrEMBL
    B4DWR3
    Related
    ENSP00000438694.1, ENST00000535916.5
    Conserved Domains (1) summary
    pfam02996
    Location:55175
    Prefoldin; Prefoldin subunit
  3. NM_001303545.1NP_001290474.1  prefoldin subunit 3 isoform 4

    See identical proteins and their annotated locations for NP_001290474.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses an alternate splice site in the 5' region and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (4) has a shorter N-terminus than isoform 1.
    Source sequence(s)
    AA626259, BC009570, BC040002, DA610631
    UniProtKB/Swiss-Prot
    P61758
    UniProtKB/TrEMBL
    Q6FH24
    Conserved Domains (1) summary
    pfam02996
    Location:23143
    Prefoldin; Prefoldin subunit
  4. NM_003372.7NP_003363.1  prefoldin subunit 3 isoform 1

    See identical proteins and their annotated locations for NP_003363.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes isoform 1.
    Source sequence(s)
    AA626259, BC009570, BC046094, DA610631
    Consensus CDS
    CCDS14765.1
    UniProtKB/Swiss-Prot
    P61758
    Related
    ENSP00000286428.5, ENST00000286428.7
    Conserved Domains (1) summary
    pfam02996
    Location:60180
    Prefoldin; Prefoldin subunit

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20190905

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p13 Primary Assembly

    Range
    155197007..155239841
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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