Q63666 (VAMP1_RAT) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Vesicle-associated membrane protein 1
Short name=VAMP-1

Alternative name(s):
Synaptobrevin-1

Gene names

Name:	Vamp1
Synonyms:	Syb1

Organism

Rattus norvegicus (Rat)

Taxonomic identifier

10116 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Rattus

Protein attributes

Sequence length	118 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Involved in the targeting and/or fusion of transport vesicles to their target membrane.
Subunit structure	Interacts with VAPA and VAPB By similarity.
Subcellular location	Isoform 1: Cytoplasmic vesicle › secretory vesicle › synaptic vesicle membrane; Single-pass type IV membrane protein. Cell junction › synapse › synaptosome By similarity Ref.2. Isoform 2: Cytoplasmic vesicle membrane; Single-pass type IV membrane protein. Note: Isoforms 2 and 3 are found in perinuclear as well as peripheral punctate structures in osteoblasts. Ref.2 Isoform 3: Mitochondrion outer membrane; Single-pass type IV membrane protein. Note: Isoforms 2 and 3 are found in perinuclear as well as peripheral punctate structures in osteoblasts. Ref.2
Tissue specificity	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. Ref.2
Sequence similarities	Belongs to the synaptobrevin family. Contains 1 v-SNARE coiled-coil homology domain.

Ontologies

Keywords
Cellular component	Cell junction Cytoplasmic vesicle Membrane Mitochondrion Mitochondrion outer membrane Synapse Synaptosome
Coding sequence diversity	Alternative splicing
Domain	Coiled coil Transmembrane Transmembrane helix
PTM	Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	intracellular protein transport Traceable author statement Ref.2. Source: RGD vesicle-mediated transport Traceable author statement Ref.2. Source: RGD
Cellular component	cell junction Inferred from electronic annotation. Source: UniProtKB-KW integral to membrane Inferred from electronic annotation. Source: UniProtKB-KW mitochondrial outer membrane Inferred from electronic annotation. Source: UniProtKB-SubCell synaptic vesicle membrane Inferred from electronic annotation. Source: UniProtKB-SubCell synaptosome Inferred from electronic annotation. Source: UniProtKB-SubCell
Complete GO annotation...

Alternative products

This entry describes 4 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q63666-1)

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.

Isoform 2 (identifier: Q63666-2)

Also known as: Vamp1b;

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

Isoform 3 (identifier: Q63666-3)

Also known as: Vamp1-ob;

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

Isoform 4 (identifier: Q63666-4)

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

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 118	118	Vesicle-associated membrane protein 1		PRO_0000206721
Regions
	Topological domain	1 – 96	96	Cytoplasmic Potential
	Transmembrane	97 – 116	20	Helical; Anchor for type IV membrane protein; Potential
	Topological domain	117 – 118	2	Vesicular Potential
	Domain	33 – 93	61	v-SNARE coiled-coil homology
Amino acid modifications
	Modified residue	63	1	Phosphoserine By similarity
Natural variations
	Alternative sequence	114 – 118	5	IYIFT → SKYR in isoform 2.		VSP_029188
	Alternative sequence	114 – 118	5	IYIFT → RQD in isoform 3.		VSP_029187
	Alternative sequence	114 – 118	5	IYIFT → NSGTEDRSCSVCFGSFC in isoform 4.		VSP_029189
Experimental info
	Sequence conflict	48	1	M → I in AAA42322. Ref.1
	Sequence conflict	49	1	R → C in AAH92206. Ref.5

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 (Vamp1a) [UniParc]. Last modified November 13, 2007. Version 2. Checksum: E34D4D735CFBF6A8	FASTA	118	12,797
	10 20 30 40 50 60 MSAPAQPPAE GTEGAAPGGG PPGPPPNTTS NRRLQQTQAQ VEEVVDIMRV NVDKVLERDQ 70 80 90 100 110 KLSELDDRAD ALQAGASVFE SSAAKLKRKY WWKNCKMMIM LGAICAIIVV VIVIYIFT
	Isoform 2 (Vamp1b) [UniParc]. Checksum: D0966B291BF6A8FC	FASTA	117	12,694
	10 20 30 40 50 60 MSAPAQPPAE GTEGAAPGGG PPGPPPNTTS NRRLQQTQAQ VEEVVDIMRV NVDKVLERDQ 70 80 90 100 110 KLSELDDRAD ALQAGASVFE SSAAKLKRKY WWKNCKMMIM LGAICAIIVV VIVSKYR
	Isoform 3 (Vamp1-ob) [UniParc]. Checksum: A78EC8ABF6A8FCDC	FASTA	116	12,558
	10 20 30 40 50 60 MSAPAQPPAE GTEGAAPGGG PPGPPPNTTS NRRLQQTQAQ VEEVVDIMRV NVDKVLERDQ 70 80 90 100 110 KLSELDDRAD ALQAGASVFE SSAAKLKRKY WWKNCKMMIM LGAICAIIVV VIVRQD
	Isoform 4 [UniParc]. Checksum: 9EFA0258B07BE3D8	FASTA	130	13,940
	10 20 30 40 50 60 MSAPAQPPAE GTEGAAPGGG PPGPPPNTTS NRRLQQTQAQ VEEVVDIMRV NVDKVLERDQ 70 80 90 100 110 120 KLSELDDRAD ALQAGASVFE SSAAKLKRKY WWKNCKMMIM LGAICAIIVV VIVNSGTEDR 130 SCSVCFGSFC

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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: 2472388] [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: 9358054] [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: 12490191] [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: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). Tissue: Brain.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	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.
IPI	IPI00211083. IPI00876601. IPI00876628. IPI00876629.
PIR	A34288.
RefSeq	NP_037222.2. NM_013090.2.
UniGene	Rn.31977.
3D structure databases
ProteinModelPortal	Q63666.
SMR	Q63666. Positions 30-98.
ModBase	Search...
Protein-protein interaction databases
MINT	MINT-5138187.
STRING	Q63666.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENSRNOT00000025081; ENSRNOP00000025081; ENSRNOG00000019219.
GeneID	25624.
KEGG	rno:25624.
UCSC	NM_013090. rat.
Organism-specific databases
CTD	6843.
RGD	3948. Vamp1.
Phylogenomic databases
eggNOG	roNOG17295.
GeneTree	ENSGT00550000074449.
HOVERGEN	HBG006675.
OMA	MIMLGRW.
OrthoDB	EOG43JC6B.
Gene expression databases
ArrayExpress	Q63666.
Genevestigator	Q63666.
GermOnline	ENSRNOG00000019219. Rattus norvegicus.
Family and domain databases
InterPro	IPR001388. Synaptobrevin. IPR016444. Synaptobrevin_met/fun. [Graphical view]
KO	K08510.
Pfam	PF00957. Synaptobrevin. 1 hit. [Graphical view]
PIRSF	PIRSF005409. Synaptobrevin_euk. 1 hit.
PRINTS	PR00219. SYNAPTOBREVN.
PROSITE	PS00417. SYNAPTOBREVIN. 1 hit. PS50892. V_SNARE. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	607405.

Entry information

Entry name

VAMP1_RAT

Accession

Primary (citable) accession number: Q63666
Secondary accession number(s): A6YSN3 , O09025, Q56A22, Q8CH14

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1997
Last sequence update:	November 13, 2007
Last modified:	November 16, 2011
This is version 91 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program