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Protein

Vesicle-associated membrane protein-associated protein A

Gene

Vapa

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

Functioni

Binds to OSBPL3, which mediates recruitment of VAPA to plasma membrane sites (By similarity). The ORP3-VAPA complex stimulates RRAS signaling which in turn attenuates integrin beta-1 (ITGB1) activation at the cell surface (By similarity). With OSBPL3, may regulate ER morphology (By similarity). May play a role in vesicle trafficking (PubMed:19289470).By similarity1 Publication

GO - Molecular functioni

  • protein heterodimerization activity Source: RGD

GO - Biological processi

  • cell death Source: UniProtKB
  • neuron projection development Source: UniProtKB
  • protein localization to endoplasmic reticulum Source: UniProtKB
Complete GO annotation...

Enzyme and pathway databases

ReactomeiR-RNO-1660661. Sphingolipid de novo biosynthesis.
R-RNO-6798695. Neutrophil degranulation.

Names & Taxonomyi

Protein namesi
Recommended name:
Vesicle-associated membrane protein-associated protein A
Short name:
VAMP-A
Short name:
VAMP-associated protein A
Short name:
VAP-A
Alternative name(s):
33 kDa VAMP-associated protein
Short name:
VAP-33
Gene namesi
Name:Vapa
Synonyms:Vap33
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 9

Organism-specific databases

RGDi61803. Vapa.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini2 – 227CytoplasmicSequence analysisAdd BLAST226
Transmembranei228 – 248Helical; Anchor for type IV membrane proteinSequence analysisAdd BLAST21

GO - Cellular componenti

  • bicellular tight junction Source: UniProtKB-SubCell
  • endoplasmic reticulum Source: UniProtKB
  • endoplasmic reticulum membrane Source: UniProtKB
  • integral component of membrane Source: UniProtKB-KW
  • membrane Source: BHF-UCL
  • nuclear membrane Source: UniProtKB
  • plasma membrane Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Cell membrane, Endoplasmic reticulum, Membrane, Nucleus, Tight junction

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi94K → D: Loss of interaction with OSBPL1A; when associated with D-96. 1 Publication1
Mutagenesisi96M → D: Loss of interaction with OSBPL1A; when associated with D-94. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00002134722 – 249Vesicle-associated membrane protein-associated protein AAdd BLAST248

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanineBy similarity1
Modified residuei125N6-acetyllysineBy similarity1
Modified residuei166PhosphoserineBy similarity1
Modified residuei170PhosphothreonineBy similarity1
Modified residuei214PhosphoserineCombined sources1
Modified residuei216PhosphoserineBy similarity1
Modified residuei219PhosphoserineBy similarity1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PaxDbiQ9Z270.
PRIDEiQ9Z270.

PTM databases

iPTMnetiQ9Z270.
PhosphoSitePlusiQ9Z270.
SwissPalmiQ9Z270.

Expressioni

Tissue specificityi

Ubiquitous.

Gene expression databases

BgeeiENSRNOG00000014765.
ExpressionAtlasiQ9Z270. differential.
GenevisibleiQ9Z270. RN.

Interactioni

Subunit structurei

Homodimer, and heterodimer with VAPB. Interacts with VAMP1, VAMP2, STX1A, BET1, SEC22C and with the C-terminal domain of OCLN (By similarity). Interacts with OSBP (By similarity). Interacts (via C-terminus) with RSAD2/viperin (via C-terminus) (By similarity). Interacts with OSBPL1A (PubMed:16004875). Interacts (via MSP domain) with ZFYVE27; may retain ZFYVE27 in the endoplasmic reticulum and regulate its function in cell projections formation (PubMed:19289470). Interacts with OSBPL3 (phosphorylated form). Interacts with KIF5A in a ZFYVE27-dependent manner (By similarity).By similarity2 Publications

GO - Molecular functioni

  • protein heterodimerization activity Source: RGD

Protein-protein interaction databases

DIPiDIP-48448N.
IntActiQ9Z270. 2 interactors.
MINTiMINT-4581027.
STRINGi10116.ENSRNOP00000020681.

Structurei

Secondary structure

1249
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi15 – 27Combined sources13
Beta strandi33 – 40Combined sources8
Beta strandi43 – 45Combined sources3
Beta strandi47 – 54Combined sources8
Helixi56 – 58Combined sources3
Beta strandi59 – 63Combined sources5
Beta strandi65 – 68Combined sources4
Beta strandi73 – 80Combined sources8
Beta strandi94 – 101Combined sources8
Helixi109 – 114Combined sources6
Helixi118 – 120Combined sources3
Beta strandi122 – 131Combined sources10

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1Z9LX-ray1.70A8-132[»]
1Z9OX-ray1.90A/B/C/D/E/F8-132[»]
ProteinModelPortaliQ9Z270.
SMRiQ9Z270.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9Z270.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini14 – 131MSPPROSITE-ProRule annotationAdd BLAST118

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili168 – 207Sequence analysisAdd BLAST40

Sequence similaritiesi

Contains 1 MSP domain.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG0439. Eukaryota.
COG5066. LUCA.
GeneTreeiENSGT00390000006947.
HOGENOMiHOG000293182.
HOVERGENiHBG028551.
InParanoidiQ9Z270.
KOiK06096.
OMAiFEMPSEN.
PhylomeDBiQ9Z270.
TreeFamiTF317024.

Family and domain databases

Gene3Di2.60.40.360. 1 hit.
InterProiIPR000535. MSP_dom.
IPR008962. PapD-like.
IPR016763. VAP.
IPR030229. VAPA.
[Graphical view]
PANTHERiPTHR10809. PTHR10809. 1 hit.
PTHR10809:SF40. PTHR10809:SF40. 1 hit.
PfamiPF00635. Motile_Sperm. 1 hit.
[Graphical view]
PIRSFiPIRSF019693. VAMP-associated. 1 hit.
SUPFAMiSSF49354. SSF49354. 1 hit.
PROSITEiPS50202. MSP. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q9Z270-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MASASGAMAK HEQILVLDPP SDLKFKGPFT DVVTTNLKLQ NPSDRKVCFK
60 70 80 90 100
VKTTAPRRYC VRPNSGVIDP GSIVTVSVML QPFDYDPNEK SKHKFMVQTI
110 120 130 140 150
FAPPNISDME AVWKEAKPDE LMDSKLRCVF EMPNENDKLN DMEPSKAVPL
160 170 180 190 200
NASKQDGPLP KPHSVSLNDT ETRKLMEECK RLQGEMMKLS EENRHLRDEG
210 220 230 240
LRLRKVAHSD KPGSTSAVSF RDNVTSPLPS LLVVIAAIFI GFFLGKFIL
Length:249
Mass (Da):27,841
Last modified:January 9, 2007 - v3
Checksum:iA30D08E31F3379C1
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti126L → P in AAD13579 (PubMed:9920726).Curated1
Sequence conflicti249L → S in AAD13579 (PubMed:9920726).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC061875 mRNA. Translation: AAH61875.2.
AF086630 mRNA. Translation: AAD13579.1.
RefSeqiNP_113819.3. NM_031631.2.
UniGeneiRn.162275.

Genome annotation databases

EnsembliENSRNOT00000020681; ENSRNOP00000020681; ENSRNOG00000014765.
GeneIDi58857.
KEGGirno:58857.
UCSCiRGD:61803. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC061875 mRNA. Translation: AAH61875.2.
AF086630 mRNA. Translation: AAD13579.1.
RefSeqiNP_113819.3. NM_031631.2.
UniGeneiRn.162275.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1Z9LX-ray1.70A8-132[»]
1Z9OX-ray1.90A/B/C/D/E/F8-132[»]
ProteinModelPortaliQ9Z270.
SMRiQ9Z270.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-48448N.
IntActiQ9Z270. 2 interactors.
MINTiMINT-4581027.
STRINGi10116.ENSRNOP00000020681.

PTM databases

iPTMnetiQ9Z270.
PhosphoSitePlusiQ9Z270.
SwissPalmiQ9Z270.

Proteomic databases

PaxDbiQ9Z270.
PRIDEiQ9Z270.

Protocols and materials databases

DNASUi58857.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000020681; ENSRNOP00000020681; ENSRNOG00000014765.
GeneIDi58857.
KEGGirno:58857.
UCSCiRGD:61803. rat.

Organism-specific databases

CTDi9218.
RGDi61803. Vapa.

Phylogenomic databases

eggNOGiKOG0439. Eukaryota.
COG5066. LUCA.
GeneTreeiENSGT00390000006947.
HOGENOMiHOG000293182.
HOVERGENiHBG028551.
InParanoidiQ9Z270.
KOiK06096.
OMAiFEMPSEN.
PhylomeDBiQ9Z270.
TreeFamiTF317024.

Enzyme and pathway databases

ReactomeiR-RNO-1660661. Sphingolipid de novo biosynthesis.
R-RNO-6798695. Neutrophil degranulation.

Miscellaneous databases

EvolutionaryTraceiQ9Z270.
PROiQ9Z270.

Gene expression databases

BgeeiENSRNOG00000014765.
ExpressionAtlasiQ9Z270. differential.
GenevisibleiQ9Z270. RN.

Family and domain databases

Gene3Di2.60.40.360. 1 hit.
InterProiIPR000535. MSP_dom.
IPR008962. PapD-like.
IPR016763. VAP.
IPR030229. VAPA.
[Graphical view]
PANTHERiPTHR10809. PTHR10809. 1 hit.
PTHR10809:SF40. PTHR10809:SF40. 1 hit.
PfamiPF00635. Motile_Sperm. 1 hit.
[Graphical view]
PIRSFiPIRSF019693. VAMP-associated. 1 hit.
SUPFAMiSSF49354. SSF49354. 1 hit.
PROSITEiPS50202. MSP. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiVAPA_RAT
AccessioniPrimary (citable) accession number: Q9Z270
Secondary accession number(s): Q6P723
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 2002
Last sequence update: January 9, 2007
Last modified: November 30, 2016
This is version 125 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  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.