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Protein

Vacuolar protein sorting-associated protein VTA1 homolog

Gene

VTA1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Involved in the endosomal multivesicular bodies (MVB) pathway. MVBs contain intraluminal vesicles (ILVs) that are generated by invagination and scission from the limiting membrane of the endosome and mostly are delivered to lysosomes enabling degradation of membrane proteins, such as stimulated growth factor receptors, lysosomal enzymes and lipids. Thought to be a cofactor of VPS4A/B, which catalyzes disassembles membrane-associated ESCRT-III assemblies. Involved in the sorting and down-regulation of EGFR (By similarity). Involved in HIV-1 budding.By similarity1 Publication

GO - Molecular functioni

  • protein C-terminus binding Source: UniProtKB

GO - Biological processi

  • autophagy Source: ParkinsonsUK-UCL
  • endosomal transport Source: Reactome
  • ESCRT III complex disassembly Source: ParkinsonsUK-UCL
  • multivesicular body assembly Source: ParkinsonsUK-UCL
  • multivesicular body sorting pathway Source: UniProtKB
  • protein transport Source: UniProtKB-KW
  • viral budding Source: UniProtKB
  • viral life cycle Source: Reactome
Complete GO annotation...

Keywords - Biological processi

Protein transport, Transport

Enzyme and pathway databases

ReactomeiR-HSA-162588. Budding and maturation of HIV virion.
R-HSA-917729. Endosomal Sorting Complex Required For Transport (ESCRT).

Names & Taxonomyi

Protein namesi
Recommended name:
Vacuolar protein sorting-associated protein VTA1 homolog
Alternative name(s):
Dopamine-responsive gene 1 protein
Short name:
DRG-1
LYST-interacting protein 5
Short name:
LIP5
SKD1-binding protein 1
Short name:
SBP1
Gene namesi
Name:VTA1
Synonyms:C6orf55
ORF Names:HSPC228, My012
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 6

Organism-specific databases

HGNCiHGNC:20954. VTA1.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: UniProtKB
  • endosome membrane Source: UniProtKB-SubCell
  • extracellular exosome Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Endosome, Membrane

Pathology & Biotechi

Organism-specific databases

DisGeNETi51534.
OpenTargetsiENSG00000009844.
PharmGKBiPA162408932.

Polymorphism and mutation databases

DMDMi30580379.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedCombined sources1 Publication
ChainiPRO_00000895092 – 307Vacuolar protein sorting-associated protein VTA1 homologAdd BLAST306

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanineCombined sources1 Publication1

Keywords - PTMi

Acetylation

Proteomic databases

EPDiQ9NP79.
MaxQBiQ9NP79.
PaxDbiQ9NP79.
PeptideAtlasiQ9NP79.
PRIDEiQ9NP79.

PTM databases

iPTMnetiQ9NP79.
PhosphoSitePlusiQ9NP79.
SwissPalmiQ9NP79.

Expressioni

Gene expression databases

BgeeiENSG00000009844.
CleanExiHS_VTA1.
ExpressionAtlasiQ9NP79. baseline and differential.
GenevisibleiQ9NP79. HS.

Organism-specific databases

HPAiHPA030968.

Interactioni

Subunit structurei

Interacts with VPS4B. Interacts with CHMP1B. Interacts with CHMP2A; the interaction probably involves the open conformation of (polymerized) CHMP2A. Interacts with CHMP3. Interacts with CHMP5; the interaction involves soluble CHMP5. Interacts with IST1.6 Publications

GO - Molecular functioni

  • protein C-terminus binding Source: UniProtKB

Protein-protein interaction databases

BioGridi119595. 40 interactors.
IntActiQ9NP79. 19 interactors.
MINTiMINT-1438279.
STRINGi9606.ENSP00000356602.

Structurei

Secondary structure

1307
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi2 – 4Combined sources3
Helixi12 – 17Combined sources6
Helixi18 – 26Combined sources9
Turni27 – 30Combined sources4
Helixi32 – 49Combined sources18
Beta strandi51 – 53Combined sources3
Helixi54 – 73Combined sources20
Turni74 – 76Combined sources3
Helixi78 – 81Combined sources4
Helixi83 – 106Combined sources24
Helixi112 – 128Combined sources17
Helixi129 – 131Combined sources3
Helixi136 – 158Combined sources23

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2LXLNMR-A1-183[»]
2LXMNMR-A1-168[»]
4TXPX-ray3.01A/B/C1-162[»]
4TXQX-ray2.21A/B1-162[»]
4TXRX-ray1.00A1-162[»]
4U7EX-ray1.60B1-162[»]
ProteinModelPortaliQ9NP79.
SMRiQ9NP79.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni2 – 186Interaction with IST1Add BLAST185
Regioni2 – 75Interaction with CHMP5Add BLAST74
Regioni198 – 307Interaction with VPS4BBy similarityAdd BLAST110

Sequence similaritiesi

Belongs to the VTA1 family.Curated

Phylogenomic databases

eggNOGiKOG0917. Eukaryota.
ENOG4111H3M. LUCA.
GeneTreeiENSGT00390000011342.
HOGENOMiHOG000265547.
HOVERGENiHBG050907.
InParanoidiQ9NP79.
KOiK12199.
OMAiREPVVAY.
OrthoDBiEOG091G0QW9.
PhylomeDBiQ9NP79.
TreeFamiTF105917.

Family and domain databases

Gene3Di1.25.40.270. 1 hit.
InterProiIPR023175. VPS_Vta1/CALS_N-dom.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9NP79-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MAALAPLPPL PAQFKSIQHH LRTAQEHDKR DPVVAYYCRL YAMQTGMKID
60 70 80 90 100
SKTPECRKFL SKLMDQLEAL KKQLGDNEAI TQEIVGCAHL ENYALKMFLY
110 120 130 140 150
ADNEDRAGRF HKNMIKSFYT ASLLIDVITV FGELTDENVK HRKYARWKAT
160 170 180 190 200
YIHNCLKNGE TPQAGPVGIE EDNDIEENED AGAASLPTQP TQPSSSSTYD
210 220 230 240 250
PSNMPSGNYT GIQIPPGAHA PANTPAEVPH STGVASNTIQ PTPQTIPAID
260 270 280 290 300
PALFNTISQG DVRLTPEDFA RAQKYCKYAG SALQYEDVST AVQNLQKALK

LLTTGRE
Length:307
Mass (Da):33,879
Last modified:October 1, 2000 - v1
Checksum:iC7DE611E50B58BF9
GO
Isoform 2 (identifier: Q9NP79-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-69: MAALAPLPPL...LSKLMDQLEA → MTSETLWWLIT
     234-260: Missing.

Show »
Length:222
Mass (Da):24,553
Checksum:iCEF86AF60A37B628
GO

Sequence cautioni

The sequence AAF36148 differs from that shown. Reason: Frameshift at positions 131 and 140.Curated
The sequence AAG43125 differs from that shown. Reason: Frameshift at position 269.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti14F → L in CAB66619 (PubMed:11230166).Curated1
Sequence conflicti155 – 156CL → V in AAF36148 (PubMed:11042152).Curated2
Sequence conflicti282A → V in BAG62917 (PubMed:14702039).Curated1
Sequence conflicti307E → D in CAG33488 (Ref. 6) Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_053917239I → M.Corresponds to variant rs2232307dbSNPEnsembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0567271 – 69MAALA…DQLEA → MTSETLWWLIT in isoform 2. 1 PublicationAdd BLAST69
Alternative sequenceiVSP_056728234 – 260Missing in isoform 2. 1 PublicationAdd BLAST27

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF271994 mRNA. Translation: AAF76210.1.
AF060225 mRNA. Translation: AAG43125.1. Frameshift.
AF151062 mRNA. Translation: AAF36148.1. Frameshift.
AL136684 mRNA. Translation: CAB66619.1.
AK000051 mRNA. Translation: BAA90909.1.
AK301376 mRNA. Translation: BAG62917.1.
CR457207 mRNA. Translation: CAG33488.1.
AL033522 Genomic DNA. Translation: CAI21072.1.
CH471051 Genomic DNA. Translation: EAW47883.1.
CH471051 Genomic DNA. Translation: EAW47885.1.
BC005937 mRNA. Translation: AAH05937.1.
BC006989 mRNA. Translation: AAH06989.1.
BC022536 mRNA. Translation: AAH22536.1.
CCDSiCCDS5197.1. [Q9NP79-1]
CCDS69214.1. [Q9NP79-2]
RefSeqiNP_001273300.1. NM_001286371.1.
NP_001273301.1. NM_001286372.1. [Q9NP79-2]
NP_057569.2. NM_016485.4. [Q9NP79-1]
UniGeneiHs.431367.

Genome annotation databases

EnsembliENST00000367630; ENSP00000356602; ENSG00000009844. [Q9NP79-1]
ENST00000452973; ENSP00000395767; ENSG00000009844. [Q9NP79-2]
GeneIDi51534.
KEGGihsa:51534.
UCSCiuc003qiw.5. human. [Q9NP79-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF271994 mRNA. Translation: AAF76210.1.
AF060225 mRNA. Translation: AAG43125.1. Frameshift.
AF151062 mRNA. Translation: AAF36148.1. Frameshift.
AL136684 mRNA. Translation: CAB66619.1.
AK000051 mRNA. Translation: BAA90909.1.
AK301376 mRNA. Translation: BAG62917.1.
CR457207 mRNA. Translation: CAG33488.1.
AL033522 Genomic DNA. Translation: CAI21072.1.
CH471051 Genomic DNA. Translation: EAW47883.1.
CH471051 Genomic DNA. Translation: EAW47885.1.
BC005937 mRNA. Translation: AAH05937.1.
BC006989 mRNA. Translation: AAH06989.1.
BC022536 mRNA. Translation: AAH22536.1.
CCDSiCCDS5197.1. [Q9NP79-1]
CCDS69214.1. [Q9NP79-2]
RefSeqiNP_001273300.1. NM_001286371.1.
NP_001273301.1. NM_001286372.1. [Q9NP79-2]
NP_057569.2. NM_016485.4. [Q9NP79-1]
UniGeneiHs.431367.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2LXLNMR-A1-183[»]
2LXMNMR-A1-168[»]
4TXPX-ray3.01A/B/C1-162[»]
4TXQX-ray2.21A/B1-162[»]
4TXRX-ray1.00A1-162[»]
4U7EX-ray1.60B1-162[»]
ProteinModelPortaliQ9NP79.
SMRiQ9NP79.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi119595. 40 interactors.
IntActiQ9NP79. 19 interactors.
MINTiMINT-1438279.
STRINGi9606.ENSP00000356602.

PTM databases

iPTMnetiQ9NP79.
PhosphoSitePlusiQ9NP79.
SwissPalmiQ9NP79.

Polymorphism and mutation databases

DMDMi30580379.

Proteomic databases

EPDiQ9NP79.
MaxQBiQ9NP79.
PaxDbiQ9NP79.
PeptideAtlasiQ9NP79.
PRIDEiQ9NP79.

Protocols and materials databases

DNASUi51534.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000367630; ENSP00000356602; ENSG00000009844. [Q9NP79-1]
ENST00000452973; ENSP00000395767; ENSG00000009844. [Q9NP79-2]
GeneIDi51534.
KEGGihsa:51534.
UCSCiuc003qiw.5. human. [Q9NP79-1]

Organism-specific databases

CTDi51534.
DisGeNETi51534.
GeneCardsiVTA1.
H-InvDBHIX0006262.
HGNCiHGNC:20954. VTA1.
HPAiHPA030968.
MIMi610902. gene.
neXtProtiNX_Q9NP79.
OpenTargetsiENSG00000009844.
PharmGKBiPA162408932.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0917. Eukaryota.
ENOG4111H3M. LUCA.
GeneTreeiENSGT00390000011342.
HOGENOMiHOG000265547.
HOVERGENiHBG050907.
InParanoidiQ9NP79.
KOiK12199.
OMAiREPVVAY.
OrthoDBiEOG091G0QW9.
PhylomeDBiQ9NP79.
TreeFamiTF105917.

Enzyme and pathway databases

ReactomeiR-HSA-162588. Budding and maturation of HIV virion.
R-HSA-917729. Endosomal Sorting Complex Required For Transport (ESCRT).

Miscellaneous databases

GeneWikiiVTA1.
GenomeRNAii51534.
PROiQ9NP79.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000009844.
CleanExiHS_VTA1.
ExpressionAtlasiQ9NP79. baseline and differential.
GenevisibleiQ9NP79. HS.

Family and domain databases

Gene3Di1.25.40.270. 1 hit.
InterProiIPR023175. VPS_Vta1/CALS_N-dom.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiVTA1_HUMAN
AccessioniPrimary (citable) accession number: Q9NP79
Secondary accession number(s): B4DW55
, E1P594, E7ETQ7, Q5TGM1, Q6IAE8, Q9H0R2, Q9H3K9, Q9P0Q0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 9, 2003
Last sequence update: October 1, 2000
Last modified: November 2, 2016
This is version 137 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 6
    Human chromosome 6: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. 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.