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Protein

Synaptotagmin-5

Gene

SYT5

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

May be involved in Ca2+-dependent exocytosis of secretory vesicles through Ca2+ and phospholipid binding to the C2 domain or may serve as Ca2+ sensors in the process of vesicular trafficking and exocytosis. Regulates the Ca2+-dependent secretion of norepinephrine in PC12 cells. Required for export from the endocytic recycling compartment to the cell surface (By similarity).By similarity

Cofactori

Ca2+By similarityNote: Binds 3 Ca2+ ions per subunit. The ions are bound to the C2 domains.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi138Calcium 2; via carbonyl oxygenBy similarity1
Metal bindingi139Calcium 1By similarity1
Metal bindingi139Calcium 2By similarity1
Metal bindingi145Calcium 1By similarity1
Metal bindingi197Calcium 1By similarity1
Metal bindingi197Calcium 2By similarity1
Metal bindingi198Calcium 1; via carbonyl oxygenBy similarity1
Metal bindingi199Calcium 1By similarity1
Metal bindingi199Calcium 2By similarity1
Metal bindingi199Calcium 3By similarity1
Metal bindingi202Calcium 3By similarity1
Metal bindingi205Calcium 2By similarity1
Metal bindingi205Calcium 3By similarity1

GO - Molecular functioni

GO - Biological processi

Keywordsi

LigandCalcium, Metal-binding

Enzyme and pathway databases

ReactomeiR-HSA-422356. Regulation of insulin secretion.

Names & Taxonomyi

Protein namesi
Recommended name:
Synaptotagmin-5
Alternative name(s):
Synaptotagmin V
Short name:
SytV
Gene namesi
Name:SYT5
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 19

Organism-specific databases

HGNCiHGNC:11513. SYT5.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini1 – 24VesicularSequence analysisAdd BLAST24
Transmembranei25 – 45HelicalSequence analysisAdd BLAST21
Topological domaini46 – 386CytoplasmicSequence analysisAdd BLAST341

GO - Cellular componenti

Keywords - Cellular componenti

Cell junction, Cytoplasmic vesicle, Endosome, Membrane, Synapse

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000129990.
PharmGKBiPA36294.

Polymorphism and mutation databases

BioMutaiSYT5.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001839511 – 386Synaptotagmin-5Add BLAST386

Proteomic databases

MaxQBiO00445.
PaxDbiO00445.
PeptideAtlasiO00445.
PRIDEiO00445.

PTM databases

iPTMnetiO00445.
PhosphoSitePlusiO00445.

Expressioni

Gene expression databases

BgeeiENSG00000129990.
CleanExiHS_SYT5.
ExpressionAtlasiO00445. baseline and differential.
GenevisibleiO00445. HS.

Interactioni

Subunit structurei

Homodimer (By similarity). Interacts with both alpha- and beta-tubulin (By similarity).By similarity

GO - Molecular functioni

Protein-protein interaction databases

BioGridi112725. 5 interactors.
IntActiO00445. 2 interactors.
MINTiMINT-1388417.
STRINGi9606.ENSP00000346265.

Structurei

Secondary structure

1386
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi111 – 119Combined sources9
Turni120 – 123Combined sources4
Beta strandi124 – 134Combined sources11
Beta strandi146 – 153Combined sources8
Beta strandi157 – 161Combined sources5
Beta strandi172 – 180Combined sources9
Helixi183 – 188Combined sources6
Beta strandi190 – 197Combined sources8
Beta strandi200 – 202Combined sources3
Beta strandi205 – 213Combined sources9
Helixi214 – 216Combined sources3
Beta strandi223 – 228Combined sources6

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5H4YX-ray1.90A102-242[»]
5H4ZX-ray3.01A/B102-242[»]
ProteinModelPortaliO00445.
SMRiO00445.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini124 – 211C2 1PROSITE-ProRule annotationAdd BLAST88
Domaini253 – 344C2 2PROSITE-ProRule annotationAdd BLAST92

Sequence similaritiesi

Belongs to the synaptotagmin family.Curated

Keywords - Domaini

Repeat, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG1028. Eukaryota.
ENOG410XRME. LUCA.
GeneTreeiENSGT00760000118973.
HOGENOMiHOG000232127.
HOVERGENiHBG005010.
InParanoidiO00445.
KOiK19905.
OMAiCRRRMGK.
OrthoDBiEOG091G0XMQ.
PhylomeDBiO00445.
TreeFamiTF315600.

Family and domain databases

Gene3Di2.60.40.150. 2 hits.
InterProiView protein in InterPro
IPR000008. C2_dom.
IPR001565. Synaptotagmin.
PfamiView protein in Pfam
PF00168. C2. 2 hits.
PRINTSiPR00360. C2DOMAIN.
PR00399. SYNAPTOTAGMN.
SMARTiView protein in SMART
SM00239. C2. 2 hits.
SUPFAMiSSF49562. SSF49562. 2 hits.
PROSITEiView protein in PROSITE
PS50004. C2. 2 hits.

Sequences (2)i

Sequence statusi: Complete.

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

Isoform 1 (identifier: O00445-1) [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
MFPEPPTPGP PSPDTPPDSS RISHGPVPPW ALATIVLVSG LLIFSCCFCL
60 70 80 90 100
YRKSCRRRTG KKSQAQAQVH LQEVKGLGQS YIDKVQPEVE ELEPAPSGPG
110 120 130 140 150
QQVADKHELG RLQYSLDYDF QSGQLLVGIL QAMGLAALDL GGSSDPYVRV
160 170 180 190 200
YLLPDKRRRY ETKVHRQTLN PHFGETFAFK VPYVELGGRV LVMAVYDFDR
210 220 230 240 250
FSRNDAIGEV RVPMSSVDLG RPVQAWRELQ AAPREEQEKL GDICFSLRYV
260 270 280 290 300
PTAGKLTVIV LEAKNLKKMD VGGLSDPYVK VHLLQGGKKV RKKKTTIKKN
310 320 330 340 350
TLNPYYNEAF SFEVPCDQVQ KVQVELTVLD YDKLGKNEAI GRVAVGAAAG
360 370 380
GAGLRHWADM LANPRRPIAQ WHSLRPPDRV RLLPAP
Length:386
Mass (Da):42,900
Last modified:July 11, 2003 - v2
Checksum:i96A36792D177FD55
GO
Isoform 2 (identifier: O00445-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-84: MFPEPPTPGP...KGLGQSYIDK → MTRGGCPVSA...PTPVASATAQ
     237-237: Missing.

Note: No experimental confirmation available.
Show »
Length:382
Mass (Da):42,474
Checksum:iDC71E8CE6086B701
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti24H → R in BAG54160 (PubMed:14702039).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_0522404E → D. Corresponds to variant dbSNP:rs2301279Ensembl.1
Natural variantiVAR_034528111R → Q2 PublicationsCorresponds to variant dbSNP:rs11542503Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0571771 – 84MFPEP…SYIDK → MTRGGCPVSARLFAQRPHGS WSSLLCVGLKGRLGWEWGTR VLECLCRKDSRTPPPCSRSP QPRGLHRPTRLPTPVASATA Q in isoform 2. 1 PublicationAdd BLAST84
Alternative sequenceiVSP_057178237Missing in isoform 2. 1 Publication1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X96783 Genomic DNA. Translation: CAA65579.1.
AK125182 mRNA. Translation: BAG54160.1.
AK295337 mRNA. Translation: BAH12036.1.
AC010327 Genomic DNA. No translation available.
BC046157 mRNA. Translation: AAH46157.1.
CCDSiCCDS12919.1. [O00445-1]
CCDS74455.1. [O00445-2]
RefSeqiNP_001284703.1. NM_001297774.1. [O00445-2]
NP_003171.2. NM_003180.2. [O00445-1]
XP_006723402.1. XM_006723339.3. [O00445-1]
XP_016882664.1. XM_017027175.1. [O00445-1]
XP_016882665.1. XM_017027176.1. [O00445-1]
UniGeneiHs.631566.

Genome annotation databases

EnsembliENST00000354308; ENSP00000346265; ENSG00000129990. [O00445-1]
ENST00000537500; ENSP00000442896; ENSG00000129990. [O00445-1]
ENST00000590851; ENSP00000465576; ENSG00000129990. [O00445-2]
GeneIDi6861.
KEGGihsa:6861.
UCSCiuc002qjm.2. human. [O00445-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X96783 Genomic DNA. Translation: CAA65579.1.
AK125182 mRNA. Translation: BAG54160.1.
AK295337 mRNA. Translation: BAH12036.1.
AC010327 Genomic DNA. No translation available.
BC046157 mRNA. Translation: AAH46157.1.
CCDSiCCDS12919.1. [O00445-1]
CCDS74455.1. [O00445-2]
RefSeqiNP_001284703.1. NM_001297774.1. [O00445-2]
NP_003171.2. NM_003180.2. [O00445-1]
XP_006723402.1. XM_006723339.3. [O00445-1]
XP_016882664.1. XM_017027175.1. [O00445-1]
XP_016882665.1. XM_017027176.1. [O00445-1]
UniGeneiHs.631566.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5H4YX-ray1.90A102-242[»]
5H4ZX-ray3.01A/B102-242[»]
ProteinModelPortaliO00445.
SMRiO00445.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi112725. 5 interactors.
IntActiO00445. 2 interactors.
MINTiMINT-1388417.
STRINGi9606.ENSP00000346265.

PTM databases

iPTMnetiO00445.
PhosphoSitePlusiO00445.

Polymorphism and mutation databases

BioMutaiSYT5.

Proteomic databases

MaxQBiO00445.
PaxDbiO00445.
PeptideAtlasiO00445.
PRIDEiO00445.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000354308; ENSP00000346265; ENSG00000129990. [O00445-1]
ENST00000537500; ENSP00000442896; ENSG00000129990. [O00445-1]
ENST00000590851; ENSP00000465576; ENSG00000129990. [O00445-2]
GeneIDi6861.
KEGGihsa:6861.
UCSCiuc002qjm.2. human. [O00445-1]

Organism-specific databases

CTDi6861.
GeneCardsiSYT5.
HGNCiHGNC:11513. SYT5.
MIMi600782. gene.
neXtProtiNX_O00445.
OpenTargetsiENSG00000129990.
PharmGKBiPA36294.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1028. Eukaryota.
ENOG410XRME. LUCA.
GeneTreeiENSGT00760000118973.
HOGENOMiHOG000232127.
HOVERGENiHBG005010.
InParanoidiO00445.
KOiK19905.
OMAiCRRRMGK.
OrthoDBiEOG091G0XMQ.
PhylomeDBiO00445.
TreeFamiTF315600.

Enzyme and pathway databases

ReactomeiR-HSA-422356. Regulation of insulin secretion.

Miscellaneous databases

GeneWikiiSYT5.
GenomeRNAii6861.
PROiPR:O00445.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000129990.
CleanExiHS_SYT5.
ExpressionAtlasiO00445. baseline and differential.
GenevisibleiO00445. HS.

Family and domain databases

Gene3Di2.60.40.150. 2 hits.
InterProiView protein in InterPro
IPR000008. C2_dom.
IPR001565. Synaptotagmin.
PfamiView protein in Pfam
PF00168. C2. 2 hits.
PRINTSiPR00360. C2DOMAIN.
PR00399. SYNAPTOTAGMN.
SMARTiView protein in SMART
SM00239. C2. 2 hits.
SUPFAMiSSF49562. SSF49562. 2 hits.
PROSITEiView protein in PROSITE
PS50004. C2. 2 hits.
ProtoNetiSearch...

Entry informationi

Entry nameiSYT5_HUMAN
AccessioniPrimary (citable) accession number: O00445
Secondary accession number(s): B3KWJ8, B7Z300, Q86X72
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: July 11, 2003
Last modified: June 7, 2017
This is version 157 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 19
    Human chromosome 19: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. 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.