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Protein

Synaptophysin

Gene

Syp

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

Functioni

Possibly involved in structural functions as organizing other membrane components or in targeting the vesicles to the plasma membrane. Involved in the regulation of short-term and long-term synaptic plasticity (By similarity).By similarity

GO - Molecular functioni

  • protein complex binding Source: RGD
  • protein domain specific binding Source: RGD
  • syntaxin-1 binding Source: MGI
  • transporter activity Source: InterPro

GO - Biological processi

  • endocytosis Source: UniProtKB
  • regulation of neuronal synaptic plasticity Source: GO_Central
  • regulation of opioid receptor signaling pathway Source: UniProtKB
Complete GO annotation...

Keywords - Ligandi

Calcium

Names & Taxonomyi

Protein namesi
Recommended name:
Synaptophysin
Alternative name(s):
Major synaptic vesicle protein p38
Gene namesi
Name:Syp
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Unplaced

Organism-specific databases

RGDi3802. Syp.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 1919CytoplasmicSequence analysisAdd
BLAST
Transmembranei20 – 4324HelicalSequence analysisAdd
BLAST
Topological domaini44 – 10158VesicularSequence analysisAdd
BLAST
Transmembranei102 – 12524HelicalSequence analysisAdd
BLAST
Topological domaini126 – 1327CytoplasmicSequence analysis
Transmembranei133 – 15624HelicalSequence analysisAdd
BLAST
Topological domaini157 – 19438VesicularSequence analysisAdd
BLAST
Transmembranei195 – 21824HelicalSequence analysisAdd
BLAST
Topological domaini219 – 30789CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

  • cell junction Source: UniProtKB-KW
  • excitatory synapse Source: BHF-UCL
  • integral component of synaptic vesicle membrane Source: RGD
  • intracellular organelle Source: RGD
  • neuron projection Source: RGD
  • neuron projection terminus Source: RGD
  • presynaptic active zone Source: MGI
  • protein complex Source: RGD
  • synaptic vesicle Source: ParkinsonsUK-UCL
  • synaptic vesicle membrane Source: UniProtKB-SubCell
  • terminal bouton Source: ParkinsonsUK-UCL
Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Cytoplasmic vesicle, Membrane, Synapse, Synaptosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 307307SynaptophysinPRO_0000179163Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi53 – 531N-linked (GlcNAc...)Sequence analysis
Modified residuei75 – 751PhosphotyrosineCombined sources
Modified residuei221 – 2211PhosphothreonineSequence analysis
Modified residuei273 – 2731PhosphotyrosineSequence analysis
Modified residuei289 – 2891PhosphotyrosineSequence analysis

Post-translational modificationi

Ubiquitinated; mediated by SIAH1 or SIAH2 and leading to its subsequent proteasomal degradation.

Keywords - PTMi

Glycoprotein, Phosphoprotein, Ubl conjugation

Proteomic databases

PaxDbiP07825.
PRIDEiP07825.

PTM databases

iPTMnetiP07825.
PhosphoSiteiP07825.

Expressioni

Tissue specificityi

Characteristic of a type of small (30-80 nm) neurosecretory vesicles, including presynaptic vesicles, but also vesicles of various neuroendocrine cells of both neuronal and epithelial phenotype.

Interactioni

Subunit structurei

Homohexamer or homotetramer. Interacts with SRCIN1 (By similarity).By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
Oprm1P335358EBI-976085,EBI-4392569
Srcin1Q9QWI6-22EBI-976085,EBI-775607From a different organism.

GO - Molecular functioni

  • protein complex binding Source: RGD
  • protein domain specific binding Source: RGD
  • syntaxin-1 binding Source: MGI

Protein-protein interaction databases

BioGridi246927. 6 interactions.
IntActiP07825. 13 interactions.
MINTiMINT-362223.
STRINGi10116.ENSRNOP00000013724.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini15 – 222208MARVELPROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni249 – 29850Repeats, Gly-richAdd
BLAST

Domaini

The calcium-binding activity is thought to be localized in the cytoplasmic tail of the protein.

Sequence similaritiesi

Belongs to the synaptophysin/synaptobrevin family.Curated
Contains 1 MARVEL domain.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IDYC. Eukaryota.
ENOG4111J4N. LUCA.
HOGENOMiHOG000252913.
HOVERGENiHBG006681.
InParanoidiP07825.
OMAiGWAAPFM.
OrthoDBiEOG7WT43S.
PhylomeDBiP07825.

Family and domain databases

InterProiIPR008253. Marvel.
IPR001285. Synaptophysin/porin.
IPR028714. SYP.
[Graphical view]
PANTHERiPTHR10306. PTHR10306. 2 hits.
PTHR10306:SF10. PTHR10306:SF10. 2 hits.
PfamiPF01284. MARVEL. 1 hit.
[Graphical view]
PRINTSiPR00220. SYNAPTOPHYSN.
PROSITEiPS51225. MARVEL. 1 hit.
PS00604. SYNAPTOP. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P07825-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDVVNQLVAG GQFRVVKEPL GFVKVLQWVF AIFAFATCGS YTGELRLSVE
60 70 80 90 100
CANKTESALN IEVEFEYPFR LHQVYFDAPS CVKGGTTKIF LVGDYSSSAE
110 120 130 140 150
FFVTVAVFAF LYSMGALATY IFLQNKYREN NKGPMMDFLA TAVFAFMWLV
160 170 180 190 200
SSSAWAKGLS DVKMATDPEN IIKEMPMCRQ TGNTCKELRD PVTSGLNTSV
210 220 230 240 250
VFGFLNLVLW VGNLWFVFKE TGWAAPFMRA PPGAPEKQPA PGDAYGDAGY
260 270 280 290 300
GQGPGGYGPQ DSYGPQGGYQ PDYGQPASGG GGYGPQGDYG QQGYGQQGAP

TSFSNQM
Length:307
Mass (Da):33,311
Last modified:August 1, 1988 - v1
Checksum:iA245E4F70BF0EAF0
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X06177 mRNA. Translation: CAA29543.1.
X06388 mRNA. Translation: CAA29685.1.
M58396
, M58402, M58401, M58399 Genomic DNA. Translation: AAA42196.1.
BC099798 mRNA. Translation: AAH99798.1.
X06655 mRNA. Translation: CAA29854.1.
PIRiJU0464. B27287.
RefSeqiNP_036796.1. NM_012664.3.
UniGeneiRn.11067.

Genome annotation databases

GeneIDi24804.
KEGGirno:24804.
UCSCiRGD:3802. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X06177 mRNA. Translation: CAA29543.1.
X06388 mRNA. Translation: CAA29685.1.
M58396
, M58402, M58401, M58399 Genomic DNA. Translation: AAA42196.1.
BC099798 mRNA. Translation: AAH99798.1.
X06655 mRNA. Translation: CAA29854.1.
PIRiJU0464. B27287.
RefSeqiNP_036796.1. NM_012664.3.
UniGeneiRn.11067.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi246927. 6 interactions.
IntActiP07825. 13 interactions.
MINTiMINT-362223.
STRINGi10116.ENSRNOP00000013724.

PTM databases

iPTMnetiP07825.
PhosphoSiteiP07825.

Proteomic databases

PaxDbiP07825.
PRIDEiP07825.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi24804.
KEGGirno:24804.
UCSCiRGD:3802. rat.

Organism-specific databases

CTDi6855.
RGDi3802. Syp.

Phylogenomic databases

eggNOGiENOG410IDYC. Eukaryota.
ENOG4111J4N. LUCA.
HOGENOMiHOG000252913.
HOVERGENiHBG006681.
InParanoidiP07825.
OMAiGWAAPFM.
OrthoDBiEOG7WT43S.
PhylomeDBiP07825.

Miscellaneous databases

PROiP07825.

Family and domain databases

InterProiIPR008253. Marvel.
IPR001285. Synaptophysin/porin.
IPR028714. SYP.
[Graphical view]
PANTHERiPTHR10306. PTHR10306. 2 hits.
PTHR10306:SF10. PTHR10306:SF10. 2 hits.
PfamiPF01284. MARVEL. 1 hit.
[Graphical view]
PRINTSiPR00220. SYNAPTOPHYSN.
PROSITEiPS51225. MARVEL. 1 hit.
PS00604. SYNAPTOP. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Synaptophysin: molecular organization and mRNA expression as determined from cloned cDNA."
    Leube R.E., Kaiser P., Seiter A., Zimbelmann R., Franke W.W., Rehm H., Knaus P., Prior P., Betz H., Reinke H., Beyreuther K., Wiedenmann B.
    EMBO J. 6:3261-3268(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  2. "The cDNA and derived amino acid sequences for rat and human synaptophysin."
    Suedhof T.C., Lottspeich F., Greengard P., Mehl E., Jahn R.
    Nucleic Acids Res. 15:9607-9607(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  3. "A synaptic vesicle protein with a novel cytoplasmic domain and four transmembrane regions."
    Suedhof T.C., Lottspeich F., Greengard P., Mehl E., Jahn R.
    Science 238:1142-1144(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], PARTIAL PROTEIN SEQUENCE.
  4. "The synaptophysin-encoding gene in rat and man is specifically transcribed in neuroendocrine cells."
    Bargou R.C.E.F., Leube R.E.
    Gene 99:197-204(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  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].
    Tissue: Prostate.
  6. "Cloning and sequence analysis of cDNA encoding p38, a major synaptic vesicle protein."
    Buckley K.M., Floor E., Kelly R.B.
    J. Cell Biol. 105:2447-2456(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 13-307.
    Tissue: Brain.
  7. "Regulation of synaptophysin degradation by mammalian homologues of Seven in Absentia."
    Wheeler T.C., Chin L.-S., Li Y., Roudabush F.L., Li L.
    J. Biol. Chem. 277:10273-10282(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH SIAH1 AND SIAH2, DEGRADATION.
    Strain: Sprague-Dawley.
  8. "Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues."
    Lundby A., Secher A., Lage K., Nordsborg N.B., Dmytriyev A., Lundby C., Olsen J.V.
    Nat. Commun. 3:876-876(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT TYR-75, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiSYPH_RAT
AccessioniPrimary (citable) accession number: P07825
Secondary accession number(s): Q499R3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 1, 1988
Last sequence update: August 1, 1988
Last modified: July 6, 2016
This is version 141 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, 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.