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Protein

Vesicle-associated membrane protein 1

Gene

Vamp1

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

Functioni

Involved in the targeting and/or fusion of transport vesicles to their target membrane.

GO - Molecular functioni

GO - Biological processi

  • exocytosis Source: GO_Central
  • intracellular protein transport Source: RGD
  • SNARE complex assembly Source: Ensembl
  • vesicle fusion Source: GO_Central
  • vesicle-mediated transport Source: RGD
Complete GO annotation...

Names & Taxonomyi

Protein namesi
Recommended name:
Vesicle-associated membrane protein 1
Short name:
VAMP-1
Alternative name(s):
Synaptobrevin-1
Gene namesi
Name:Vamp1
Synonyms:Syb1
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 4

Organism-specific databases

RGDi3948. Vamp1.

Subcellular locationi

Isoform 2 :
Isoform 3 :

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 9696CytoplasmicSequence analysisAdd
BLAST
Transmembranei97 – 11620Helical; Anchor for type IV membrane proteinSequence analysisAdd
BLAST
Topological domaini117 – 1182VesicularSequence analysis

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Cytoplasmic vesicle, Membrane, Mitochondrion, Mitochondrion outer membrane, Synapse, Synaptosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 118118Vesicle-associated membrane protein 1PRO_0000206721Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei63 – 631PhosphoserineBy similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiQ63666.
PRIDEiQ63666.

PTM databases

iPTMnetiQ63666.
SwissPalmiQ63666.

Expressioni

Tissue specificityi

Expressed in brain and spleen (at protein level). Isoform 1 expressed at very high level in brain. Even higher level found in spinal cord. Isoform 3 expressed in kidney, spleen and liver. Isoforms 2 and 3 expressed in osteoblasts of trabecular bone. Also expressed in heart.1 Publication

Gene expression databases

ExpressionAtlasiQ63666. baseline and differential.
GenevisibleiQ63666. RN.

Interactioni

Subunit structurei

Interacts with VAPA and VAPB.By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
Stx12G3V7P13EBI-2029956,EBI-915654

GO - Molecular functioni

Protein-protein interaction databases

BioGridi247653. 1 interaction.
IntActiQ63666. 5 interactions.
MINTiMINT-5138187.
STRINGi10116.ENSRNOP00000025081.

Structurei

3D structure databases

ProteinModelPortaliQ63666.
SMRiQ63666. Positions 30-98.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini33 – 9361v-SNARE coiled-coil homologyPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the synaptobrevin family.Curated
Contains 1 v-SNARE coiled-coil homology domain.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG0860. Eukaryota.
COG5143. LUCA.
HOGENOMiHOG000042711.
HOVERGENiHBG006675.
InParanoidiQ63666.
KOiK08510.
PhylomeDBiQ63666.
TreeFamiTF313666.

Family and domain databases

Gene3Di1.10.3840.10. 1 hit.
InterProiIPR001388. Synaptobrevin.
IPR016444. Synaptobrevin/VAMP.
[Graphical view]
PfamiPF00957. Synaptobrevin. 1 hit.
[Graphical view]
PIRSFiPIRSF005409. Synaptobrevin_euk. 1 hit.
PRINTSiPR00219. SYNAPTOBREVN.
PROSITEiPS00417. SYNAPTOBREVIN. 1 hit.
PS50892. V_SNARE. 1 hit.
[Graphical view]

Sequences (4)i

Sequence statusi: Complete.

This entry describes 4 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q63666-1) [UniParc]FASTAAdd to basket

Also known as: Vamp1a

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
MSAPAQPPAE GTEGAAPGGG PPGPPPNTTS NRRLQQTQAQ VEEVVDIMRV
60 70 80 90 100
NVDKVLERDQ KLSELDDRAD ALQAGASVFE SSAAKLKRKY WWKNCKMMIM
110
LGAICAIIVV VIVIYIFT
Length:118
Mass (Da):12,797
Last modified:November 13, 2007 - v2
Checksum:iE34D4D735CFBF6A8
GO
Isoform 2 (identifier: Q63666-2) [UniParc]FASTAAdd to basket

Also known as: Vamp1b

The sequence of this isoform differs from the canonical sequence as follows:
     114-118: IYIFT → SKYR

Show »
Length:117
Mass (Da):12,694
Checksum:iD0966B291BF6A8FC
GO
Isoform 3 (identifier: Q63666-3) [UniParc]FASTAAdd to basket

Also known as: Vamp1-ob

The sequence of this isoform differs from the canonical sequence as follows:
     114-118: IYIFT → RQD

Show »
Length:116
Mass (Da):12,558
Checksum:iA78EC8ABF6A8FCDC
GO
Isoform 4 (identifier: Q63666-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     114-118: IYIFT → NSGTEDRSCSVCFGSFC

Show »
Length:130
Mass (Da):13,940
Checksum:i9EFA0258B07BE3D8
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti48 – 481M → I in AAA42322 (PubMed:2472388).Curated
Sequence conflicti49 – 491R → C in AAH92206 (PubMed:15489334).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei114 – 1185IYIFT → SKYR in isoform 2. 2 PublicationsVSP_029188
Alternative sequencei114 – 1185IYIFT → RQD in isoform 3. 2 PublicationsVSP_029187
Alternative sequencei114 – 1185IYIFT → NSGTEDRSCSVCFGSFC in isoform 4. 1 PublicationVSP_029189

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M24104 mRNA. Translation: AAA42322.1.
U74621 mRNA. Translation: AAC53427.1.
AF498262 mRNA. Translation: AAN85832.1.
EF653274 mRNA. Translation: ABR68027.1.
EF653275 mRNA. Translation: ABR68028.1.
BC092206 mRNA. Translation: AAH92206.1.
PIRiA34288.
RefSeqiNP_037222.2. NM_013090.2. [Q63666-1]
UniGeneiRn.31977.

Genome annotation databases

EnsembliENSRNOT00000025081; ENSRNOP00000025081; ENSRNOG00000019219. [Q63666-1]
GeneIDi25624.
KEGGirno:25624.
UCSCiRGD:3948. rat. [Q63666-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M24104 mRNA. Translation: AAA42322.1.
U74621 mRNA. Translation: AAC53427.1.
AF498262 mRNA. Translation: AAN85832.1.
EF653274 mRNA. Translation: ABR68027.1.
EF653275 mRNA. Translation: ABR68028.1.
BC092206 mRNA. Translation: AAH92206.1.
PIRiA34288.
RefSeqiNP_037222.2. NM_013090.2. [Q63666-1]
UniGeneiRn.31977.

3D structure databases

ProteinModelPortaliQ63666.
SMRiQ63666. Positions 30-98.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi247653. 1 interaction.
IntActiQ63666. 5 interactions.
MINTiMINT-5138187.
STRINGi10116.ENSRNOP00000025081.

PTM databases

iPTMnetiQ63666.
SwissPalmiQ63666.

Proteomic databases

PaxDbiQ63666.
PRIDEiQ63666.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000025081; ENSRNOP00000025081; ENSRNOG00000019219. [Q63666-1]
GeneIDi25624.
KEGGirno:25624.
UCSCiRGD:3948. rat. [Q63666-1]

Organism-specific databases

CTDi6843.
RGDi3948. Vamp1.

Phylogenomic databases

eggNOGiKOG0860. Eukaryota.
COG5143. LUCA.
HOGENOMiHOG000042711.
HOVERGENiHBG006675.
InParanoidiQ63666.
KOiK08510.
PhylomeDBiQ63666.
TreeFamiTF313666.

Miscellaneous databases

PROiQ63666.

Gene expression databases

ExpressionAtlasiQ63666. baseline and differential.
GenevisibleiQ63666. RN.

Family and domain databases

Gene3Di1.10.3840.10. 1 hit.
InterProiIPR001388. Synaptobrevin.
IPR016444. Synaptobrevin/VAMP.
[Graphical view]
PfamiPF00957. Synaptobrevin. 1 hit.
[Graphical view]
PIRSFiPIRSF005409. Synaptobrevin_euk. 1 hit.
PRINTSiPR00219. SYNAPTOBREVN.
PROSITEiPS00417. SYNAPTOBREVIN. 1 hit.
PS50892. V_SNARE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Two vesicle-associated membrane protein genes are differentially expressed in the rat central nervous system."
    Elferink L.A., Trimble W.S., Scheller R.H.
    J. Biol. Chem. 264:11061-11064(1989) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
  2. "Tissue-specific alternative RNA splicing of rat vesicle-associated membrane protein-1 (VAMP-1)."
    Mandic R., Trimble W.S., Lowe A.W.
    Gene 199:173-179(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), SUBCELLULAR LOCATION, TISSUE SPECIFICITY.
  3. "Identification of the molecular mechanisms contributing to polarized trafficking in osteoblasts."
    Prele C.M., Horton M.A., Caterina P., Stenbeck G.
    Exp. Cell Res. 282:24-34(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 2 AND 3).
    Strain: Wistar.
    Tissue: Osteoblast.
  4. "Identification of a novel Vamp1 splice variant in the cochlear nucleus containing intra-vesicular kinase recognition sites."
    Friedland D.R., Eernisse R., Popper P.
    Submitted (JUN-2007) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 3 AND 4).
    Strain: Brown Norway.
    Tissue: Cochlear nucleus.
  5. "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] (ISOFORM 1).
    Tissue: Brain.

Entry informationi

Entry nameiVAMP1_RAT
AccessioniPrimary (citable) accession number: Q63666
Secondary accession number(s): A6YSN3
, O09025, Q56A22, Q8CH14
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 13, 2007
Last modified: July 6, 2016
This is version 127 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.