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Protein

Vacuolar protein sorting-associated protein 16 homolog

Gene

Vps16

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Plays a role in vesicle-mediated protein trafficking to lysosomal compartments including the endocytic membrane transport and autophagic pathways. Believed to act as a core component of the putative HOPS and CORVET endosomal tethering complexes which are proposed to be involved in the Rab5-to-Rab7 endosome conversion probably implicating MON1A/B, and via binding SNAREs and SNARE complexes to mediate tethering and docking events during SNARE-mediated membrane fusion. The HOPS complex is proposed to be recruited to Rab7 on the late endosomal membrane and to regulate late endocytic, phagocytic and autophagic traffic towards lysosomes. The CORVET complex is proposed to function as a Rab5 effector to mediate early endosome fusion probably in specific endosome subpopulations. Required for recruitment of VPS33A to the HOPS complex. Required for fusion of endosomes and autophagosomes with lysosomes; the function is dependent on its association with VPS33A but not VPS33B. The function in autophagosome-lysosome fusion implicates STX17 but not UVRAG.By similarity

GO - Molecular functioni

  • actin binding Source: MGI

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Autophagy, Protein transport, Transport

Names & Taxonomyi

Protein namesi
Recommended name:
Vacuolar protein sorting-associated protein 16 homolog
Short name:
mVPS16
Gene namesi
Name:Vps16
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Unplaced

Organism-specific databases

MGIiMGI:2136772. Vps16.

Subcellular locationi

  • Late endosome membrane By similarity; Peripheral membrane protein By similarity; Cytoplasmic side By similarity
  • Lysosome membrane By similarity; Peripheral membrane protein By similarity; Cytoplasmic side By similarity
  • Early endosome By similarity1 Publication
  • Cytoplasmic vesicleclathrin-coated vesicle 1 Publication
  • Cytoplasmic vesicleautophagosome By similarity

  • Note: Colocalizes with AP-3, clathrin, Rab5 and Rab7b (PubMed:21411634). Cytoplasmic, peripheral membrane protein associated with early endosomes and late endosomes/lysosomes.By similarity1 Publication

GO - Cellular componenti

  • actin filament Source: MGI
  • autophagosome Source: UniProtKB-SubCell
  • clathrin-coated vesicle Source: UniProtKB
  • CORVET complex Source: UniProtKB
  • early endosome Source: MGI
  • early endosome membrane Source: UniProtKB
  • HOPS complex Source: MGI
  • late endosome Source: MGI
  • late endosome membrane Source: UniProtKB-SubCell
  • lysosomal membrane Source: MGI
  • lysosome Source: MGI
  • recycling endosome Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasmic vesicle, Endosome, Lysosome, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 839839Vacuolar protein sorting-associated protein 16 homologPRO_0000065889Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei4 – 41Nitrated tyrosineCombined sources

Keywords - PTMi

Nitration

Proteomic databases

EPDiQ920Q4.
MaxQBiQ920Q4.
PaxDbiQ920Q4.
PeptideAtlasiQ920Q4.
PRIDEiQ920Q4.

PTM databases

iPTMnetiQ920Q4.
PhosphoSiteiQ920Q4.

Expressioni

Gene expression databases

CleanExiMM_VPS16.

Interactioni

Subunit structurei

Core component of at least two putative endosomal tethering complexes, the homotypic fusion and vacuole protein sorting (HOPS) complex and the class C core vacuaole/endosome tethering (CORVET) complex. Their common core is composed of the class C Vps proteins VPS11, VPS16, VPS18 and VPS33A, which in HOPS further associates with VPS39 and VPS41 and in CORVET with VPS8 and TGFBRAP1 (PubMed:25266290). Interacts with RAB5C (PubMed:25266290). Interacts with STX17, MON1B (By similarity). Associates with adaptor protein complex 3 (AP-3) and clathrin:AP-3 complexes (PubMed:21411634).By similarity1 Publication2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
VIPAS39Q9H9C14EBI-775797,EBI-749080From a different organism.

GO - Molecular functioni

  • actin binding Source: MGI

Protein-protein interaction databases

IntActiQ920Q4. 4 interactions.
MINTiMINT-4140055.
STRINGi10090.ENSMUSP00000028900.

Structurei

3D structure databases

ProteinModelPortaliQ920Q4.
SMRiQ920Q4. Positions 85-111, 518-806.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni642 – 73695Interaction with VPS33ABy similarityAdd
BLAST

Sequence similaritiesi

Belongs to the VPS16 family.Curated

Phylogenomic databases

eggNOGiKOG2280. Eukaryota.
ENOG410XQ8X. LUCA.
HOGENOMiHOG000177385.
HOVERGENiHBG056306.
InParanoidiQ920Q4.
PhylomeDBiQ920Q4.

Family and domain databases

InterProiIPR016534. VPS16.
IPR006925. Vps16_C.
IPR006926. Vps16_N.
[Graphical view]
PANTHERiPTHR12811:SF0. PTHR12811:SF0. 1 hit.
PfamiPF04840. Vps16_C. 1 hit.
PF04841. Vps16_N. 1 hit.
[Graphical view]
PIRSFiPIRSF007949. VPS16. 1 hit.

Sequences (2)i

Sequence statusi: Complete.

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

Isoform 1 (identifier: Q920Q4-1) [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
MDCYTANWNP LGDSAFYRKY ELYSMDWDLK EELKDCLVAA APYGGPIALL
60 70 80 90 100
RNCWRKEKAA SVRPVLEIYS ASGLPLASLL WKSGPVVALG WSAEEELLCV
110 120 130 140 150
QEDGAVLVYG LHGDFRRHFS MGNEVLQNRV LDARIFHTEF GSGVAILTGA
160 170 180 190 200
YRFTLSANVG DLKLRRMPEV PGLQSAPSCW TTLCHDRVPH ILLAVGPDLY
210 220 230 240 250
LLDHATCSAV TPAGLAPGVS SFLQMAVSFT YRYLALFTDT GYIWMGTASL
260 270 280 290 300
KEKLCEFNCN IRAPPKQMVW CSRPRSKERA VVVAWERRLM VVGNAPESIQ
310 320 330 340 350
FVLDEDSYLV PELDGVRIFS RSTHEFLHEV PVASEEIFKI ASMAPGALLL
360 370 380 390 400
EAQKEYEKES QKADEYLREI QELGQLIQAV QQCIEAAGHE HQPDMQKSLL
410 420 430 440 450
RAASFGKCFL DRFPPDSFVH MCQDLRVLNA IRDYHIGIPL TYTQYKQLTI
460 470 480 490 500
QVLLDRLVLR RLYPLAIQIC EYLRLPEVQG VSRILAHWAC YKARAWDMRD
510 520 530 540 550
EDVARAINQK LGDTPGVSYS DIAARAYGCG RTELAIKLLE YEPRSGEQVP
560 570 580 590 600
LLLKMKRSKL ALSKAIESGD TDLVFTVLLH LKNELNRGDF FMTLRNQPMA
610 620 630 640 650
LSLYRQFCKH QELDTLKDLY NQDDNHQELG SFHIRASYAA EERIEGRVAA
660 670 680 690 700
LQTAADAFYK AKNEFAAKAT EDQMRLLRIQ RRLEDELGGR FLDLSLHDTV
710 720 730 740 750
TTLILGGHNK RAEQLARDFR IPDKRLWWLK LAALADLEDW EELEKFSKSK
760 770 780 790 800
KSPIGYLPFV EICMKQHNKH EAKKYASRVG PEQKVKALLL VGDVAQAAEV
810 820 830
AIEHRNETEL SLVLSHCTGA TDGAIADKIQ RARAQAQKK
Length:839
Mass (Da):94,928
Last modified:July 27, 2011 - v3
Checksum:i42C9B3C87E5763C2
GO
Isoform 2 (identifier: Q920Q4-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-420: Missing.

Note: No experimental confirmation available.
Show »
Length:419
Mass (Da):47,914
Checksum:iBA9044C076B695E7
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti155 – 1551L → Q in BAB64892 (Ref. 1) Curated
Sequence conflicti173 – 1731L → M in BAB64892 (Ref. 1) Curated
Sequence conflicti173 – 1731L → M in AAH25626 (PubMed:15489334).Curated
Sequence conflicti431 – 4311I → V in BAB64892 (Ref. 1) Curated
Sequence conflicti493 – 4997ARAWDMR → VQQKDVS in BAB64892 (Ref. 1) Curated
Sequence conflicti493 – 4997ARAWDMR → VQQKDVS in AAH03944 (PubMed:15489334).Curated
Sequence conflicti493 – 4997ARAWDMR → VQQKDVS in AAH25626 (PubMed:15489334).Curated
Sequence conflicti653 – 6531T → M in AAH25626 (PubMed:15489334).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 420420Missing in isoform 2. 1 PublicationVSP_004019Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB056721 mRNA. Translation: BAB64892.1.
BX890605 Genomic DNA. Translation: CAM20123.1.
BC003944 mRNA. Translation: AAH03944.1.
BC025626 mRNA. Translation: AAH25626.1.
CCDSiCCDS38242.1. [Q920Q4-1]
UniGeneiMm.276092.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB056721 mRNA. Translation: BAB64892.1.
BX890605 Genomic DNA. Translation: CAM20123.1.
BC003944 mRNA. Translation: AAH03944.1.
BC025626 mRNA. Translation: AAH25626.1.
CCDSiCCDS38242.1. [Q920Q4-1]
UniGeneiMm.276092.

3D structure databases

ProteinModelPortaliQ920Q4.
SMRiQ920Q4. Positions 85-111, 518-806.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ920Q4. 4 interactions.
MINTiMINT-4140055.
STRINGi10090.ENSMUSP00000028900.

PTM databases

iPTMnetiQ920Q4.
PhosphoSiteiQ920Q4.

Proteomic databases

EPDiQ920Q4.
MaxQBiQ920Q4.
PaxDbiQ920Q4.
PeptideAtlasiQ920Q4.
PRIDEiQ920Q4.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Organism-specific databases

MGIiMGI:2136772. Vps16.

Phylogenomic databases

eggNOGiKOG2280. Eukaryota.
ENOG410XQ8X. LUCA.
HOGENOMiHOG000177385.
HOVERGENiHBG056306.
InParanoidiQ920Q4.
PhylomeDBiQ920Q4.

Miscellaneous databases

PROiQ920Q4.
SOURCEiSearch...

Gene expression databases

CleanExiMM_VPS16.

Family and domain databases

InterProiIPR016534. VPS16.
IPR006925. Vps16_C.
IPR006926. Vps16_N.
[Graphical view]
PANTHERiPTHR12811:SF0. PTHR12811:SF0. 1 hit.
PfamiPF04840. Vps16_C. 1 hit.
PF04841. Vps16_N. 1 hit.
[Graphical view]
PIRSFiPIRSF007949. VPS16. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Cloning of mouse Vps16."
    Akazawa C., Kim B.Y., Helmut K.
    Submitted (MAR-2001) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
    Tissue: Brain.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: C57BL/6J.
  3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
    Tissue: Mammary tumor.
  4. Cited for: NITRATION [LARGE SCALE ANALYSIS] AT TYR-4, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain.
  5. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain, Kidney, Liver, Lung, Pancreas, Spleen and Testis.
  6. "Clathrin-dependent mechanisms modulate the subcellular distribution of class C Vps/HOPS tether subunits in polarized and nonpolarized cells."
    Zlatic S.A., Tornieri K., L'Hernault S.W., Faundez V.
    Mol. Biol. Cell 22:1699-1715(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH AP-3 COMPLEX AND CLATHRIN, SUBCELLULAR LOCATION.
  7. "Mammalian CORVET is required for fusion and conversion of distinct early endosome subpopulations."
    Perini E.D., Schaefer R., Stoeter M., Kalaidzidis Y., Zerial M.
    Traffic 15:1366-1389(2014) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH RAB5C, SUBUNIT.

Entry informationi

Entry nameiVPS16_MOUSE
AccessioniPrimary (citable) accession number: Q920Q4
Secondary accession number(s): A2BI91, Q8R3C3, Q99KZ4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 19, 2002
Last sequence update: July 27, 2011
Last modified: July 6, 2016
This is version 110 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. 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.