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Protein

Vacuolar protein sorting-associated protein VTA1 homolog

Gene

VTA1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -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

  • ESCRT III complex disassembly Source: ParkinsonsUK-UCL
  • macroautophagy 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

Keywordsi

Biological processProtein 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

EuPathDBiHostDB:ENSG00000009844.15
HGNCiHGNC:20954 VTA1
MIMi610902 gene
neXtProtiNX_Q9NP79

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

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
ProteomicsDBi81922

PTM databases

iPTMnetiQ9NP79
PhosphoSitePlusiQ9NP79
SwissPalmiQ9NP79

Expressioni

Gene expression databases

BgeeiENSG00000009844 Expressed in 205 organ(s), highest expression level in amniotic fluid
CleanExiHS_VTA1
ExpressionAtlasiQ9NP79 baseline and differential
GenevisibleiQ9NP79 HS

Organism-specific databases

HPAiHPA030968
HPA030969

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

Binary interactionsi

WithEntry#Exp.IntActNotes
ZBTB16Q055163EBI-740160,EBI-711925

GO - Molecular functioni

Protein-protein interaction databases

BioGridi119595, 41 interactors
IntActiQ9NP79, 25 interactors
STRINGi9606.ENSP00000356602

Structurei

Secondary structure

1307
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

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
OMAiQTADTFQ
OrthoDBiEOG091G0QW9
PhylomeDBiQ9NP79
TreeFamiTF105917

Family and domain databases

Gene3Di1.25.40.270, 1 hit
InterProiView protein in InterPro
IPR023175 VPS_Vta1/CALS_N
IPR039431 Vta1/CALS_N
PfamiView protein in Pfam
PF04652 Vta1, 1 hit

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

This entry has 2 described isoforms and 2 potential isoforms that are computationally mapped.Show allAlign All

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

Computationally mapped potential isoform sequencesi

There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A087WY55A0A087WY55_HUMAN
Chromosome 6 open reading frame 55,...
VTA1 C6orf55, hCG_18120
280Annotation score:
Q5TGM0Q5TGM0_HUMAN
Vacuolar protein sorting-associated...
VTA1
249Annotation score:

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 dbSNP:rs2232307Ensembl.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 No translation available.
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

Similar proteinsi

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 No translation available.
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, 41 interactors
IntActiQ9NP79, 25 interactors
STRINGi9606.ENSP00000356602

PTM databases

iPTMnetiQ9NP79
PhosphoSitePlusiQ9NP79
SwissPalmiQ9NP79

Polymorphism and mutation databases

DMDMi30580379

Proteomic databases

EPDiQ9NP79
MaxQBiQ9NP79
PaxDbiQ9NP79
PeptideAtlasiQ9NP79
PRIDEiQ9NP79
ProteomicsDBi81922

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
EuPathDBiHostDB:ENSG00000009844.15
GeneCardsiVTA1
H-InvDBiHIX0006262
HGNCiHGNC:20954 VTA1
HPAiHPA030968
HPA030969
MIMi610902 gene
neXtProtiNX_Q9NP79
OpenTargetsiENSG00000009844
PharmGKBiPA162408932
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0917 Eukaryota
ENOG4111H3M LUCA
GeneTreeiENSGT00390000011342
HOGENOMiHOG000265547
HOVERGENiHBG050907
InParanoidiQ9NP79
KOiK12199
OMAiQTADTFQ
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
PROiPR:Q9NP79
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000009844 Expressed in 205 organ(s), highest expression level in amniotic fluid
CleanExiHS_VTA1
ExpressionAtlasiQ9NP79 baseline and differential
GenevisibleiQ9NP79 HS

Family and domain databases

Gene3Di1.25.40.270, 1 hit
InterProiView protein in InterPro
IPR023175 VPS_Vta1/CALS_N
IPR039431 Vta1/CALS_N
PfamiView protein in Pfam
PF04652 Vta1, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiVTA1_HUMAN
AccessioniPrimary (citable) accession number: Q9NP79
Secondary accession number(s): B4DW55
, E1P594, E7ETQ7, Q5TGM1, Q6IAE8, Q9H0R2, Q9H3K9, Q9P0Q0
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 9, 2003
Last sequence update: October 1, 2000
Last modified: October 10, 2018
This is version 150 of the entry and version 1 of the sequence. See 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. SIMILARITY comments
    Index of protein domains and families
  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. Human chromosome 6
    Human chromosome 6: entries, gene names and cross-references to MIM
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