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Protein

Vacuolar protein sorting-associated protein 52 homolog

Gene

VPS52

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

Functioni

Acts as component of the GARP complex that is involved in retrograde transport from early and late endosomes to the trans-Golgi network (TGN). The GARP complex is required for the maintenance of the cycling of mannose 6-phosphate receptors between the TGN and endosomes, this cycling is necessary for proper lysosomal sorting of acid hydrolases such as CTSD (PubMed:15878329, PubMed:18367545). Acts as component of the EARP complex that is involved in endocytic recycling. The EARP complex associates with Rab4-positive endosomes and promotes recycling of internalized transferrin receptor (TFRC) to the plasma membrane (PubMed:25799061).3 Publications

GO - Molecular functioni

  • Rab GTPase binding Source: GO_Central
  • syntaxin binding Source: UniProtKB

GO - Biological processi

  • ectodermal cell differentiation Source: Ensembl
  • embryonic ectodermal digestive tract development Source: Ensembl
  • endocytic recycling Source: UniProtKB
  • Golgi to vacuole transport Source: GO_Central
  • lysosomal transport Source: MGI
  • protein transport Source: UniProtKB-KW
  • retrograde transport, endosome to Golgi Source: GO_Central

Keywordsi

Biological processProtein transport, Transport

Enzyme and pathway databases

ReactomeiR-HSA-6811440. Retrograde transport at the Trans-Golgi-Network.

Names & Taxonomyi

Protein namesi
Recommended name:
Vacuolar protein sorting-associated protein 52 homolog
Alternative name(s):
SAC2 suppressor of actin mutations 2-like protein
Gene namesi
Name:VPS52
Synonyms:SACM2L
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 6

Organism-specific databases

HGNCiHGNC:10518. VPS52.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: GOC
  • EARP complex Source: UniProtKB
  • endosome membrane Source: UniProtKB-SubCell
  • GARP complex Source: MGI
  • Golgi apparatus Source: UniProtKB
  • membrane Source: MGI
  • perinuclear region of cytoplasm Source: UniProtKB
  • recycling endosome Source: UniProtKB
  • trans-Golgi network membrane Source: Reactome

Keywords - Cellular componenti

Endosome, Golgi apparatus, Membrane

Pathology & Biotechi

Organism-specific databases

DisGeNETi6293.
OpenTargetsiENSG00000223501.
PharmGKBiPA34926.

Polymorphism and mutation databases

BioMutaiVPS52.
DMDMi74750887.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedCombined sources
ChainiPRO_00002133152 – 723Vacuolar protein sorting-associated protein 52 homologAdd BLAST722

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanineCombined sources1
Modified residuei355PhosphoserineCombined sources1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiQ8N1B4.
MaxQBiQ8N1B4.
PaxDbiQ8N1B4.
PeptideAtlasiQ8N1B4.
PRIDEiQ8N1B4.

PTM databases

iPTMnetiQ8N1B4.
PhosphoSitePlusiQ8N1B4.

Expressioni

Gene expression databases

BgeeiENSG00000206286.
CleanExiHS_VPS52.
ExpressionAtlasiQ8N1B4. baseline and differential.
GenevisibleiQ8N1B4. HS.

Organism-specific databases

HPAiHPA042667.
HPA048128.

Interactioni

Subunit structurei

Component of the Golgi-associated retrograde protein (GARP) complex, also called VFT (VPS fifty-three) complex, composed of VPS51, VPS52, VPS53 and VPS54 (PubMed:15878329, PubMed:20685960). Component of the endosome-associated retrograde protein (EARP) complex, composed of VPS51, VPS52, VPS53 and VPS50/Syndetin (PubMed:25799061). Interacts with RAB6A and STX10 (PubMed:15878329, PubMed:20685960).3 Publications

Binary interactionsi

Show more details

GO - Molecular functioni

  • Rab GTPase binding Source: GO_Central
  • syntaxin binding Source: UniProtKB

Protein-protein interaction databases

BioGridi112200. 71 interactors.
DIPiDIP-57843N.
IntActiQ8N1B4. 108 interactors.
MINTiMINT-3039108.
STRINGi9606.ENSP00000409952.

Structurei

3D structure databases

ProteinModelPortaliQ8N1B4.
SMRiQ8N1B4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili107 – 127Sequence analysisAdd BLAST21
Coiled coili194 – 215Sequence analysisAdd BLAST22

Sequence similaritiesi

Belongs to the VPS52 family.Curated

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiKOG1961. Eukaryota.
ENOG410XNZ1. LUCA.
GeneTreeiENSGT00390000008815.
HOVERGENiHBG052966.
InParanoidiQ8N1B4.
KOiK20298.
OMAiYKFRKPM.
OrthoDBiEOG09370VL2.
PhylomeDBiQ8N1B4.
TreeFamiTF314937.

Family and domain databases

InterProiView protein in InterPro
IPR007258. Vps52.
PANTHERiPTHR14190. PTHR14190. 1 hit.
PfamiView protein in Pfam
PF04129. Vps52. 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

Isoform 1 (identifier: Q8N1B4-1) [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
MAAAATMAAA ARELVLRAGT SDMEEEEGPL AGGPGLQEPL QLGELDITSD
60 70 80 90 100
EFILDEVDVH IQANLEDELV KEALKTGVDL RHYSKQVELE LQQIEQKSIR
110 120 130 140 150
DYIQESENIA SLHNQITACD AVLERMEQML GAFQSDLSSI SSEIRTLQEQ
160 170 180 190 200
SGAMNIRLRN RQAVRGKLGE LVDGLVVPSA LVTAILEAPV TEPRFLEQLQ
210 220 230 240 250
ELDAKAAAVR EQEARGTAAC ADVRGVLDRL RVKAVTKIRE FILQKIYSFR
260 270 280 290 300
KPMTNYQIPQ TALLKYRFFY QFLLGNERAT AKEIRDEYVE TLSKIYLSYY
310 320 330 340 350
RSYLGRLMKV QYEEVAEKDD LMGVEDTAKK GFFSKPSLRS RNTIFTLGTR
360 370 380 390 400
GSVISPTELE APILVPHTAQ RGEQRYPFEA LFRSQHYALL DNSCREYLFI
410 420 430 440 450
CEFFVVSGPA AHDLFHAVMG RTLSMTLKHL DSYLADCYDA IAVFLCIHIV
460 470 480 490 500
LRFRNIAAKR DVPALDRYWE QVLALLWPRF ELILEMNVQS VRSTDPQRLG
510 520 530 540 550
GLDTRPHYIT RRYAEFSSAL VSINQTIPNE RTMQLLGQLQ VEVENFVLRV
560 570 580 590 600
AAEFSSRKEQ LVFLINNYDM MLGVLMERAA DDSKEVESFQ QLLNARTQEF
610 620 630 640 650
IEELLSPPFG GLVAFVKEAE ALIERGQAER LRGEEARVTQ LIRGFGSSWK
660 670 680 690 700
SSVESLSQDV MRSFTNFRNG TSIIQGALTQ LIQLYHRFHR VLSQPQLRAL
710 720
PARAELINIH HLMVELKKHK PNF
Length:723
Mass (Da):82,221
Last modified:October 1, 2002 - v1
Checksum:iC0961E2BE50B24DF
GO
Isoform 2 (identifier: Q8N1B4-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-125: Missing.

Note: No experimental confirmation available.
Show »
Length:598
Mass (Da):68,496
Checksum:iA5901265E5EEDBC7
GO

Sequence cautioni

The sequence CAI95619 differs from that shown. Reason: Erroneous gene model prediction.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti710H → P in BAD96587 (Ref. 2) Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0564761 – 125Missing in isoform 2. 1 PublicationAdd BLAST125

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK297935 mRNA. Translation: BAG60251.1.
AK222867 mRNA. Translation: BAD96587.1.
AL645940 Genomic DNA. No translation available.
AL031228 Genomic DNA. Translation: CAI95619.1. Sequence problems.
BX248408 Genomic DNA. Translation: CAM26258.1.
CR762434, CR759817 Genomic DNA. Translation: CAQ06872.1.
CR759817, CR762434 Genomic DNA. Translation: CAQ08020.1.
CR759786 Genomic DNA. Translation: CAQ08250.1.
CH471081 Genomic DNA. Translation: EAX03688.1.
BC032108 mRNA. Translation: AAH32108.1.
BC040114 mRNA. Translation: AAH40114.2.
AL390171 mRNA. Translation: CAB99099.1.
CCDSiCCDS4770.2. [Q8N1B4-1]
PIRiT51882.
RefSeqiNP_001276104.1. NM_001289175.1. [Q8N1B4-2]
NP_001276105.1. NM_001289176.1.
NP_072047.4. NM_022553.5. [Q8N1B4-1]
XP_016866667.1. XM_017011178.1. [Q8N1B4-2]
UniGeneiHs.480356.

Genome annotation databases

EnsembliENST00000383210; ENSP00000372697; ENSG00000206286. [Q8N1B4-1]
ENST00000428608; ENSP00000406988; ENSG00000236014. [Q8N1B4-1]
ENST00000441058; ENSP00000390831; ENSG00000228425. [Q8N1B4-1]
ENST00000443860; ENSP00000404016; ENSG00000224455. [Q8N1B4-1]
ENST00000445902; ENSP00000409952; ENSG00000223501. [Q8N1B4-1]
ENST00000448042; ENSP00000391197; ENSG00000225590. [Q8N1B4-1]
GeneIDi6293.
KEGGihsa:6293.
UCSCiuc003odm.3. human. [Q8N1B4-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK297935 mRNA. Translation: BAG60251.1.
AK222867 mRNA. Translation: BAD96587.1.
AL645940 Genomic DNA. No translation available.
AL031228 Genomic DNA. Translation: CAI95619.1. Sequence problems.
BX248408 Genomic DNA. Translation: CAM26258.1.
CR762434, CR759817 Genomic DNA. Translation: CAQ06872.1.
CR759817, CR762434 Genomic DNA. Translation: CAQ08020.1.
CR759786 Genomic DNA. Translation: CAQ08250.1.
CH471081 Genomic DNA. Translation: EAX03688.1.
BC032108 mRNA. Translation: AAH32108.1.
BC040114 mRNA. Translation: AAH40114.2.
AL390171 mRNA. Translation: CAB99099.1.
CCDSiCCDS4770.2. [Q8N1B4-1]
PIRiT51882.
RefSeqiNP_001276104.1. NM_001289175.1. [Q8N1B4-2]
NP_001276105.1. NM_001289176.1.
NP_072047.4. NM_022553.5. [Q8N1B4-1]
XP_016866667.1. XM_017011178.1. [Q8N1B4-2]
UniGeneiHs.480356.

3D structure databases

ProteinModelPortaliQ8N1B4.
SMRiQ8N1B4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi112200. 71 interactors.
DIPiDIP-57843N.
IntActiQ8N1B4. 108 interactors.
MINTiMINT-3039108.
STRINGi9606.ENSP00000409952.

PTM databases

iPTMnetiQ8N1B4.
PhosphoSitePlusiQ8N1B4.

Polymorphism and mutation databases

BioMutaiVPS52.
DMDMi74750887.

Proteomic databases

EPDiQ8N1B4.
MaxQBiQ8N1B4.
PaxDbiQ8N1B4.
PeptideAtlasiQ8N1B4.
PRIDEiQ8N1B4.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000383210; ENSP00000372697; ENSG00000206286. [Q8N1B4-1]
ENST00000428608; ENSP00000406988; ENSG00000236014. [Q8N1B4-1]
ENST00000441058; ENSP00000390831; ENSG00000228425. [Q8N1B4-1]
ENST00000443860; ENSP00000404016; ENSG00000224455. [Q8N1B4-1]
ENST00000445902; ENSP00000409952; ENSG00000223501. [Q8N1B4-1]
ENST00000448042; ENSP00000391197; ENSG00000225590. [Q8N1B4-1]
GeneIDi6293.
KEGGihsa:6293.
UCSCiuc003odm.3. human. [Q8N1B4-1]

Organism-specific databases

CTDi6293.
DisGeNETi6293.
GeneCardsiVPS52.
HGNCiHGNC:10518. VPS52.
HPAiHPA042667.
HPA048128.
MIMi603443. gene.
neXtProtiNX_Q8N1B4.
OpenTargetsiENSG00000223501.
PharmGKBiPA34926.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1961. Eukaryota.
ENOG410XNZ1. LUCA.
GeneTreeiENSGT00390000008815.
HOVERGENiHBG052966.
InParanoidiQ8N1B4.
KOiK20298.
OMAiYKFRKPM.
OrthoDBiEOG09370VL2.
PhylomeDBiQ8N1B4.
TreeFamiTF314937.

Enzyme and pathway databases

ReactomeiR-HSA-6811440. Retrograde transport at the Trans-Golgi-Network.

Miscellaneous databases

ChiTaRSiVPS52. human.
GeneWikiiVPS52.
GenomeRNAii6293.
PROiPR:Q8N1B4.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000206286.
CleanExiHS_VPS52.
ExpressionAtlasiQ8N1B4. baseline and differential.
GenevisibleiQ8N1B4. HS.

Family and domain databases

InterProiView protein in InterPro
IPR007258. Vps52.
PANTHERiPTHR14190. PTHR14190. 1 hit.
PfamiView protein in Pfam
PF04129. Vps52. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiVPS52_HUMAN
AccessioniPrimary (citable) accession number: Q8N1B4
Secondary accession number(s): A2BF38
, B0UZZ4, B4DNI9, Q53GR4, Q5JPA0, Q5SQW1, Q8IUN6, Q9NPT5
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 22, 2005
Last sequence update: October 1, 2002
Last modified: June 7, 2017
This is version 126 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

Complete proteome, Reference proteome

Documents

  1. Human chromosome 6
    Human chromosome 6: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  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.