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Protein

Vacuolar protein sorting-associated protein 29

Gene

Vps29

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Acts as component of the retromer cargo-selective complex (CSC). The CSC is believed to be the core functional component of retromer or respective retromer complex variants acting to prevent missorting of selected transmembrane cargo proteins into the lysosomal degradation pathway. The recruitment of the CSC to the endosomal membrane involves RAB7A and SNX3. The SNX-BAR retromer mediates retrograde transport of cargo proteins from endosomes to the trans-Golgi network (TGN) and is involved in endosome-to-plasma membrane transport for cargo protein recycling. The SNX3-retromer mediates the retrograde endosome-to-TGN transport of WLS distinct from the SNX-BAR retromer pathway. The SNX27-retromer is believed to be involved in endosome-to-plasma membrane trafficking and recycling of a broad spectrum of cargo proteins. The CSC seems to act as recruitment hub for other proteins, such as the WASH complex and TBC1D5. Required to regulate transcytosis of the polymeric immunoglobulin receptor (pIgR-pIgA). Involved in GLUT1 endosome-to-plasma membrane trafficking; the function is dependent of association with ANKRD27 (By similarity).By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi8 – 81Zinc 1By similarity
Metal bindingi10 – 101Zinc 1By similarity
Metal bindingi39 – 391Zinc 1By similarity
Metal bindingi39 – 391Zinc 2By similarity
Metal bindingi62 – 621Zinc 2By similarity
Metal bindingi86 – 861Zinc 2By similarity
Metal bindingi115 – 1151Zinc 2By similarity
Metal bindingi117 – 1171Zinc 1By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Protein transport, Transport

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-RNO-3238698. WNT ligand biogenesis and trafficking.

Names & Taxonomyi

Protein namesi
Recommended name:
Vacuolar protein sorting-associated protein 29By similarity
Alternative name(s):
Vesicle protein sorting 29By similarity
Gene namesi
Name:Vps29Imported
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 12

Organism-specific databases

RGDi1308332. Vps29.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Endosome, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 182182Vacuolar protein sorting-associated protein 29PRO_0000365104Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei50 – 501N6-acetyllysineBy similarity

Keywords - PTMi

Acetylation

Proteomic databases

PaxDbiB2RZ78.
PeptideAtlasiB2RZ78.
PRIDEiB2RZ78.

PTM databases

iPTMnetiB2RZ78.
PhosphoSiteiB2RZ78.

Expressioni

Gene expression databases

BgeeiENSRNOG00000001274.
ExpressionAtlasiB2RZ78. baseline and differential.
GenevisibleiB2RZ78. RN.

Interactioni

Subunit structurei

Component of the heterotrimeric retromer cargo-selective complex (CSC), also described as vacuolar protein sorting subcomplex (VPS), formed by VPS26 (VPS26A or VPS26B), VPS29 and VPS35. The CSC has a highly elongated structure with VPS26 and VPS29 binding independently at opposite distal ends of VPS35 as central platform. The CSC is believed to associate with variable sorting nexins to form functionally distinct retromer complex variants. The originally described retromer complex (also called SNX-BAR retromer) is a pentamer containing the CSC and a heterodimeric membrane-deforming subcomplex formed between SNX1 or SNX2 and SNX5 or SNX6 (also called SNX-BAR subcomplex); the respective CSC and SNX-BAR subcomplexes associate with low affinity. The CSC associates with SNX3 to form a SNX3-retromer complex. The CSC associates with SNX27, the WASH complex and the SNX-BAR subcomplex to form the SNX27-retromer complex. Interacts with VPS26A, VPS35, SNX1, SNX2, SNX27, KIAA0196, TBC1D5, VPS26B and ANKRD27 (By similarity).By similarity

Protein-protein interaction databases

BioGridi252647. 1 interaction.
STRINGi10116.ENSRNOP00000001717.

Family & Domainsi

Sequence similaritiesi

Belongs to the VPS29 family.Sequence analysis

Phylogenomic databases

eggNOGiKOG3325. Eukaryota.
COG0622. LUCA.
GeneTreeiENSGT00390000012669.
HOGENOMiHOG000293431.
HOVERGENiHBG056165.
InParanoidiB2RZ78.
KOiK18467.
PhylomeDBiB2RZ78.

Family and domain databases

Gene3Di3.60.21.10. 1 hit.
InterProiIPR024654. Calcineurin-like_PHP_lpxH.
IPR029052. Metallo-depent_PP-like.
IPR000979. Phosphodiesterase_MJ0936/Vps29.
[Graphical view]
PANTHERiPTHR11124. PTHR11124. 1 hit.
PfamiPF12850. Metallophos_2. 1 hit.
[Graphical view]
SUPFAMiSSF56300. SSF56300. 1 hit.
TIGRFAMsiTIGR00040. yfcE. 1 hit.

Sequences (2)i

Sequence statusi: Complete.

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

Isoform 1 (identifier: B2RZ78-1) [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
MLVLVLGDLH IPHRCNSLPA KFKKLLVPGK IQHILCTGNL CTKESYDYLK
60 70 80 90 100
TLAGDVHIVR GDFDESLNYP EQKVVTVGQF KIGLIHGHQV IPWGDMASLA
110 120 130 140 150
LLQRQFDVDI LISGHTHKFE AFEHENKFYI NPGSATGAYN ALETNIIPSF
160 170 180
VLMDIQASTV VTYVYQLIGD DVKVERIEYK KS
Length:182
Mass (Da):20,469
Last modified:March 3, 2009 - v2
Checksum:iCCDCC36B7B9EC64E
GO
Isoform 21 Publication (identifier: B2RZ78-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-1: M → MAGHR

Note: No experimental confirmation available.Curated
Show »
Length:186
Mass (Da):20,890
Checksum:iDAA50C6A39F400D9
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 11M → MAGHR in isoform 2. 1 PublicationVSP_053030

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CH473973 Genomic DNA. Translation: EDM13693.1.
BC167055 mRNA. Translation: AAI67055.1.
RefSeqiNP_001099402.1. NM_001105932.1. [B2RZ78-1]
XP_006249424.1. XM_006249362.2. [B2RZ78-2]
UniGeneiRn.2547.

Genome annotation databases

EnsembliENSRNOT00000001717; ENSRNOP00000001717; ENSRNOG00000001274. [B2RZ78-1]
ENSRNOT00000088905; ENSRNOP00000074640; ENSRNOG00000001274. [B2RZ78-2]
GeneIDi288666.
KEGGirno:288666.
UCSCiRGD:1308332. rat. [B2RZ78-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CH473973 Genomic DNA. Translation: EDM13693.1.
BC167055 mRNA. Translation: AAI67055.1.
RefSeqiNP_001099402.1. NM_001105932.1. [B2RZ78-1]
XP_006249424.1. XM_006249362.2. [B2RZ78-2]
UniGeneiRn.2547.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi252647. 1 interaction.
STRINGi10116.ENSRNOP00000001717.

PTM databases

iPTMnetiB2RZ78.
PhosphoSiteiB2RZ78.

Proteomic databases

PaxDbiB2RZ78.
PeptideAtlasiB2RZ78.
PRIDEiB2RZ78.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000001717; ENSRNOP00000001717; ENSRNOG00000001274. [B2RZ78-1]
ENSRNOT00000088905; ENSRNOP00000074640; ENSRNOG00000001274. [B2RZ78-2]
GeneIDi288666.
KEGGirno:288666.
UCSCiRGD:1308332. rat. [B2RZ78-1]

Organism-specific databases

CTDi51699.
RGDi1308332. Vps29.

Phylogenomic databases

eggNOGiKOG3325. Eukaryota.
COG0622. LUCA.
GeneTreeiENSGT00390000012669.
HOGENOMiHOG000293431.
HOVERGENiHBG056165.
InParanoidiB2RZ78.
KOiK18467.
PhylomeDBiB2RZ78.

Enzyme and pathway databases

ReactomeiR-RNO-3238698. WNT ligand biogenesis and trafficking.

Miscellaneous databases

PROiB2RZ78.

Gene expression databases

BgeeiENSRNOG00000001274.
ExpressionAtlasiB2RZ78. baseline and differential.
GenevisibleiB2RZ78. RN.

Family and domain databases

Gene3Di3.60.21.10. 1 hit.
InterProiIPR024654. Calcineurin-like_PHP_lpxH.
IPR029052. Metallo-depent_PP-like.
IPR000979. Phosphodiesterase_MJ0936/Vps29.
[Graphical view]
PANTHERiPTHR11124. PTHR11124. 1 hit.
PfamiPF12850. Metallophos_2. 1 hit.
[Graphical view]
SUPFAMiSSF56300. SSF56300. 1 hit.
TIGRFAMsiTIGR00040. yfcE. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiVPS29_RAT
AccessioniPrimary (citable) accession number: B2RZ78
Secondary accession number(s): A6J1A4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 3, 2009
Last sequence update: March 3, 2009
Last modified: September 7, 2016
This is version 62 of the entry and version 2 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. 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.