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Protein

Vacuolar protein sorting-associated protein 53 homolog

Gene

Vps53

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: -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. 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.By similarity

GO - Biological processi

Keywordsi

Biological processProtein transport, Transport

Enzyme and pathway databases

ReactomeiR-MMU-6811440 Retrograde transport at the Trans-Golgi-Network

Names & Taxonomyi

Protein namesi
Recommended name:
Vacuolar protein sorting-associated protein 53 homolog
Gene namesi
Name:Vps53
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 11

Organism-specific databases

MGIiMGI:1915549 Vps53

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

Endosome, Golgi apparatus, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002151901 – 832Vacuolar protein sorting-associated protein 53 homologAdd BLAST832

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei110N6-acetyllysineBy similarity1
Modified residuei360N6-acetyllysineBy similarity1
Modified residuei377PhosphoserineCombined sources1
Modified residuei391PhosphothreonineCombined sources1
Modified residuei580PhosphoserineBy similarity1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiQ8CCB4
PaxDbiQ8CCB4
PeptideAtlasiQ8CCB4
PRIDEiQ8CCB4

PTM databases

iPTMnetiQ8CCB4
PhosphoSitePlusiQ8CCB4

Expressioni

Gene expression databases

BgeeiENSMUSG00000017288 Expressed in 289 organ(s), highest expression level in pigmented layer of retina
CleanExiMM_VPS53
ExpressionAtlasiQ8CCB4 baseline and differential
GenevisibleiQ8CCB4 MM

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. Component of the endosome-associated retrograde protein (EARP) complex, composed of VPS51, VPS52, VPS53 and VPS50/Syndetin. EIPR1 interacts with both EARP and GARP complexes and mediates the recruitment of the GARP complex to the trans-Golgi network.By similarity

Protein-protein interaction databases

BioGridi212792, 1 interactor
STRINGi10090.ENSMUSP00000061317

Structurei

3D structure databases

ProteinModelPortaliQ8CCB4
SMRiQ8CCB4
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili55 – 142Sequence analysisAdd BLAST88

Sequence similaritiesi

Belongs to the VPS53 family.Curated

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiKOG2180 Eukaryota
ENOG410XNMT LUCA
GeneTreeiENSGT00390000015165
HOGENOMiHOG000265899
HOVERGENiHBG092351
InParanoidiQ8CCB4
KOiK20299
OMAiNTADYCY
OrthoDBiEOG091G024J
PhylomeDBiQ8CCB4
TreeFamiTF106150

Family and domain databases

InterProiView protein in InterPro
IPR039766 Vps53
IPR007234 Vps53_N
PANTHERiPTHR12820 PTHR12820, 1 hit
PfamiView protein in Pfam
PF04100 Vps53_N, 1 hit

Sequences (2+)i

Sequence statusi: Complete.

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

This entry has 2 described isoforms and 8 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: Q8CCB4-1) [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
MMEEEELEFV EELEAVLQLT PEVQLAIEQV FPSQDPLDQA DFNAVEYINT
60 70 80 90 100
LFPTEQSLAN IDDVVNKIRL KIRRLDDNIR TVVRGQTNVG QDGRQALEEA
110 120 130 140 150
QKAIQQLFGK IKDIKDKAEK SEQMVKEITR DIKQLDHAKR HLTTSITTLN
160 170 180 190 200
HLHMLAGGVD SLEAMTRRRQ YGEVANLLQG VMNVLEHFHK YMGIPQIRQL
210 220 230 240 250
SERVKAAQTE LGQQILADFE EAFPSQGTKR PGGPSNVLRD ACLVANILDP
260 270 280 290 300
RIKQEIIKKF IKQHLSEYLV LFQENQDVAW LDKIDRRYAW VKRQLVDYEE
310 320 330 340 350
KYGRMFPREW CMTERISVEF CHVTRAELSK IMRARAKEIE VKLLLFAIQR
360 370 380 390 400
TTNFEGFLAK RFSGCTLTDG TLKKLESPPP STNPFLEDET TPEMEELALE
410 420 430 440 450
KGELEQPKKP KAPDNPFHGI VSKCFEPHLY VYIESQDKNL SELIDRFVAD
460 470 480 490 500
FKAQGPPKPN TDEGGAVLPS CADLFVYYKK CMVQCSQLST GEPMIALTTI
510 520 530 540 550
FQKYLREYAW KILSGNLPKT SSSSGGLTIS SLLKEKEGSE VARFTLEELC
560 570 580 590 600
LICSILSTAE YCLATTQQLE EKLKEKVDVS LTERINLTGE MDTFSTVISS
610 620 630 640 650
SIQLLVQDLD AACDPALIAM SKMPWQNVEH VGDQSPYVTS VILHIKQNVP
660 670 680 690 700
IIRDNLASTR KYFTQFCIKF ANSFIPKFIT HLFKCKPISM VGAEQLLLDT
710 720 730 740 750
HSLKMVLLDL PSIGSQVVRK APASYTKIVV KGMTRAEMIL KVVMAPHEPL
760 770 780 790 800
VVFVDNYIKL LTDCNSETFQ KILDMKGLKR SEQSSMLELL RQRLPAPPSG
810 820 830
TEGSSTLSLI APTPEQESSR IRKLEKLIKK RL
Length:832
Mass (Da):94,423
Last modified:March 1, 2003 - v1
Checksum:i7B9C9FFA702EE88E
GO
Isoform 2 (identifier: Q8CCB4-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     230-406: Missing.

Note: No experimental confirmation available.
Show »
Length:655
Mass (Da):73,703
Checksum:i46D07A8D48BF59E0
GO

Computationally mapped potential isoform sequencesi

There are 8 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
E9PXG9E9PXG9_MOUSE
Vacuolar protein sorting-associated...
Vps53
803Annotation score:
E9PYD3E9PYD3_MOUSE
Vacuolar protein sorting-associated...
Vps53
547Annotation score:
E9Q648E9Q648_MOUSE
Vacuolar protein sorting-associated...
Vps53
334Annotation score:
E9Q3C3E9Q3C3_MOUSE
Vacuolar protein sorting-associated...
Vps53
123Annotation score:
F6Z4G7F6Z4G7_MOUSE
Vacuolar protein sorting-associated...
Vps53
204Annotation score:
E9PWD1E9PWD1_MOUSE
Vacuolar protein sorting-associated...
Vps53
419Annotation score:
E9Q8C4E9Q8C4_MOUSE
Vacuolar protein sorting-associated...
Vps53
41Annotation score:
E9Q124E9Q124_MOUSE
Vacuolar protein sorting-associated...
Vps53
36Annotation score:

Sequence cautioni

The sequence BAB26620 differs from that shown. Reason: Erroneous initiation.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti85G → V in BAB31707 (PubMed:16141072).Curated1
Sequence conflicti524S → G in BAB26620 (PubMed:16141072).Curated1
Sequence conflicti614D → E in BAB26620 (PubMed:16141072).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_016239230 – 406Missing in isoform 2. 1 PublicationAdd BLAST177

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK009970 mRNA Translation: BAB26620.1 Different initiation.
AK019408 mRNA Translation: BAB31707.1
AK033495 mRNA Translation: BAC28318.1
AK049259 mRNA Translation: BAC33641.1
AL591129 Genomic DNA No translation available.
BC034371 mRNA Translation: AAH34371.1
CCDSiCCDS25060.1 [Q8CCB4-1]
RefSeqiNP_080940.2, NM_026664.3 [Q8CCB4-1]
UniGeneiMm.440494
Mm.46397

Genome annotation databases

EnsembliENSMUST00000056601; ENSMUSP00000061317; ENSMUSG00000017288 [Q8CCB4-1]
ENSMUST00000108419; ENSMUSP00000104057; ENSMUSG00000017288 [Q8CCB4-2]
GeneIDi68299
KEGGimmu:68299
UCSCiuc007kfa.1 mouse [Q8CCB4-1]
uc011xzq.1 mouse [Q8CCB4-2]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK009970 mRNA Translation: BAB26620.1 Different initiation.
AK019408 mRNA Translation: BAB31707.1
AK033495 mRNA Translation: BAC28318.1
AK049259 mRNA Translation: BAC33641.1
AL591129 Genomic DNA No translation available.
BC034371 mRNA Translation: AAH34371.1
CCDSiCCDS25060.1 [Q8CCB4-1]
RefSeqiNP_080940.2, NM_026664.3 [Q8CCB4-1]
UniGeneiMm.440494
Mm.46397

3D structure databases

ProteinModelPortaliQ8CCB4
SMRiQ8CCB4
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi212792, 1 interactor
STRINGi10090.ENSMUSP00000061317

PTM databases

iPTMnetiQ8CCB4
PhosphoSitePlusiQ8CCB4

Proteomic databases

EPDiQ8CCB4
PaxDbiQ8CCB4
PeptideAtlasiQ8CCB4
PRIDEiQ8CCB4

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000056601; ENSMUSP00000061317; ENSMUSG00000017288 [Q8CCB4-1]
ENSMUST00000108419; ENSMUSP00000104057; ENSMUSG00000017288 [Q8CCB4-2]
GeneIDi68299
KEGGimmu:68299
UCSCiuc007kfa.1 mouse [Q8CCB4-1]
uc011xzq.1 mouse [Q8CCB4-2]

Organism-specific databases

CTDi55275
MGIiMGI:1915549 Vps53

Phylogenomic databases

eggNOGiKOG2180 Eukaryota
ENOG410XNMT LUCA
GeneTreeiENSGT00390000015165
HOGENOMiHOG000265899
HOVERGENiHBG092351
InParanoidiQ8CCB4
KOiK20299
OMAiNTADYCY
OrthoDBiEOG091G024J
PhylomeDBiQ8CCB4
TreeFamiTF106150

Enzyme and pathway databases

ReactomeiR-MMU-6811440 Retrograde transport at the Trans-Golgi-Network

Miscellaneous databases

ChiTaRSiVps53 mouse
PROiPR:Q8CCB4
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000017288 Expressed in 289 organ(s), highest expression level in pigmented layer of retina
CleanExiMM_VPS53
ExpressionAtlasiQ8CCB4 baseline and differential
GenevisibleiQ8CCB4 MM

Family and domain databases

InterProiView protein in InterPro
IPR039766 Vps53
IPR007234 Vps53_N
PANTHERiPTHR12820 PTHR12820, 1 hit
PfamiView protein in Pfam
PF04100 Vps53_N, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiVPS53_MOUSE
AccessioniPrimary (citable) accession number: Q8CCB4
Secondary accession number(s): Q8C7U0
, Q8CIA1, Q9CX82, Q9D6T7
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 22, 2005
Last sequence update: March 1, 2003
Last modified: November 7, 2018
This is version 114 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
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Main funding by: National Institutes of Health

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