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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 transcript 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)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi138 – 1381Calcium 2; via carbonyl oxygenBy similarity
Metal bindingi139 – 1391Calcium 1By similarity
Metal bindingi139 – 1391Calcium 2By similarity
Metal bindingi145 – 1451Calcium 1By similarity
Metal bindingi197 – 1971Calcium 1By similarity
Metal bindingi197 – 1971Calcium 2By similarity
Metal bindingi198 – 1981Calcium 1; via carbonyl oxygenBy similarity
Metal bindingi199 – 1991Calcium 1By similarity
Metal bindingi199 – 1991Calcium 2By similarity
Metal bindingi199 – 1991Calcium 3By similarity
Metal bindingi202 – 2021Calcium 3By similarity
Metal bindingi205 – 2051Calcium 2By similarity
Metal bindingi205 – 2051Calcium 3By similarity

GO - Molecular functioni

  1. calcium-dependent phospholipid binding Source: Ensembl
  2. metal ion binding Source: UniProtKB-KW
  3. transporter activity Source: InterPro

GO - Biological processi

  1. calcium ion-dependent exocytosis Source: InterPro
  2. energy reserve metabolic process Source: Reactome
  3. regulation of insulin secretion Source: Reactome
  4. small molecule metabolic process Source: Reactome
  5. synaptic transmission Source: ProtInc
Complete GO annotation...

Keywords - Ligandi

Calcium, Metal-binding

Enzyme and pathway databases

ReactomeiREACT_18325. 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
ProteomesiUP000005640: Chromosome 19

Organism-specific databases

HGNCiHGNC:11513. SYT5.

Subcellular locationi

Cytoplasmic vesiclesecretory vesiclesynaptic vesicle membrane By similarity; Single-pass membrane protein By similarity. Recycling endosome membrane By similarity; Single-pass membrane protein By similarity
Note: In mast cells, localizes to the endocytic recycling compartment.By similarity

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 2424VesicularSequence AnalysisAdd
BLAST
Transmembranei25 – 4521HelicalSequence AnalysisAdd
BLAST
Topological domaini46 – 386341CytoplasmicSequence AnalysisAdd
BLAST

GO - Cellular componenti

  1. cell junction Source: UniProtKB-KW
  2. dense core granule Source: Ensembl
  3. integral component of membrane Source: UniProtKB-KW
  4. neuronal cell body Source: Ensembl
  5. neuron projection Source: Ensembl
  6. perinuclear region of cytoplasm Source: Ensembl
  7. recycling endosome membrane Source: UniProtKB-SubCell
  8. synaptic vesicle membrane Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Cytoplasmic vesicle, Endosome, Membrane, Synapse

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA36294.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 386386Synaptotagmin-5PRO_0000183951Add
BLAST

Proteomic databases

MaxQBiO00445.
PaxDbiO00445.
PRIDEiO00445.

PTM databases

PhosphoSiteiO00445.

Expressioni

Gene expression databases

BgeeiO00445.
CleanExiHS_SYT5.
ExpressionAtlasiO00445. baseline and differential.
GenevestigatoriO00445.

Organism-specific databases

HPAiHPA010688.

Interactioni

Subunit structurei

Homodimer. Can also form heterodimers with SYT6. Interacts with both alpha- and beta-tubulin (By similarity).By similarity

Protein-protein interaction databases

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

Structurei

3D structure databases

ProteinModelPortaliO00445.
SMRiO00445. Positions 108-380.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini124 – 21188C2 1PROSITE-ProRule annotationAdd
BLAST
Domaini253 – 34492C2 2PROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the synaptotagmin family.Curated
Contains 2 C2 domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiNOG292488.
GeneTreeiENSGT00760000118973.
HOGENOMiHOG000232127.
HOVERGENiHBG005010.
InParanoidiO00445.
OMAiYRKSCRR.
PhylomeDBiO00445.
TreeFamiTF315600.

Family and domain databases

Gene3Di2.60.40.150. 2 hits.
InterProiIPR000008. C2_dom.
IPR001565. Synaptotagmin.
IPR028689. SYT5.
[Graphical view]
PANTHERiPTHR10024:SF37. PTHR10024:SF37. 1 hit.
PfamiPF00168. C2. 2 hits.
[Graphical view]
PRINTSiPR00360. C2DOMAIN.
PR00399. SYNAPTOTAGMN.
SMARTiSM00239. C2. 2 hits.
[Graphical view]
SUPFAMiSSF49562. SSF49562. 2 hits.
PROSITEiPS50004. C2. 2 hits.
[Graphical view]

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)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti24 – 241H → R in BAG54160 (PubMed:14702039).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti4 – 41E → D.
Corresponds to variant rs2301279 [ dbSNP | Ensembl ].
VAR_052240
Natural varianti111 – 1111R → Q.2 Publications
Corresponds to variant rs11542503 [ dbSNP | Ensembl ].
VAR_034528

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 8484MFPEP…SYIDK → MTRGGCPVSARLFAQRPHGS WSSLLCVGLKGRLGWEWGTR VLECLCRKDSRTPPPCSRSP QPRGLHRPTRLPTPVASATA Q in isoform 2. 1 PublicationVSP_057177Add
BLAST
Alternative sequencei237 – 2371Missing in isoform 2. 1 PublicationVSP_057178

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_006723401.1. XM_006723338.1. [O00445-1]
XP_006723402.1. XM_006723339.1. [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.1. 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_006723401.1. XM_006723338.1. [O00445-1]
XP_006723402.1. XM_006723339.1. [O00445-1]
UniGeneiHs.631566.

3D structure databases

ProteinModelPortaliO00445.
SMRiO00445. Positions 108-380.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

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

PTM databases

PhosphoSiteiO00445.

Proteomic databases

MaxQBiO00445.
PaxDbiO00445.
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.1. human. [O00445-1]

Organism-specific databases

CTDi6861.
GeneCardsiGC19M055684.
HGNCiHGNC:11513. SYT5.
HPAiHPA010688.
MIMi600782. gene.
neXtProtiNX_O00445.
PharmGKBiPA36294.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG292488.
GeneTreeiENSGT00760000118973.
HOGENOMiHOG000232127.
HOVERGENiHBG005010.
InParanoidiO00445.
OMAiYRKSCRR.
PhylomeDBiO00445.
TreeFamiTF315600.

Enzyme and pathway databases

ReactomeiREACT_18325. Regulation of insulin secretion.

Miscellaneous databases

GeneWikiiSYT5.
GenomeRNAii6861.
NextBioi26775.
PROiO00445.
SOURCEiSearch...

Gene expression databases

BgeeiO00445.
CleanExiHS_SYT5.
ExpressionAtlasiO00445. baseline and differential.
GenevestigatoriO00445.

Family and domain databases

Gene3Di2.60.40.150. 2 hits.
InterProiIPR000008. C2_dom.
IPR001565. Synaptotagmin.
IPR028689. SYT5.
[Graphical view]
PANTHERiPTHR10024:SF37. PTHR10024:SF37. 1 hit.
PfamiPF00168. C2. 2 hits.
[Graphical view]
PRINTSiPR00360. C2DOMAIN.
PR00399. SYNAPTOTAGMN.
SMARTiSM00239. C2. 2 hits.
[Graphical view]
SUPFAMiSSF49562. SSF49562. 2 hits.
PROSITEiPS50004. C2. 2 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Human synaptotagmin V (SYT5): sequence, genomic structure, and chromosomal location."
    Craxton M.A., Olsen A., Goedert M.
    Genomics 42:165-169(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Tissue: Brain.
  2. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
    Tissue: Brain and Caudate nucleus.
  3. "The DNA sequence and biology of human chromosome 19."
    Grimwood J., Gordon L.A., Olsen A.S., Terry A., Schmutz J., Lamerdin J.E., Hellsten U., Goodstein D., Couronne O., Tran-Gyamfi M., Aerts A., Altherr M., Ashworth L., Bajorek E., Black S., Branscomb E., Caenepeel S., Carrano A.V.
    , Caoile C., Chan Y.M., Christensen M., Cleland C.A., Copeland A., Dalin E., Dehal P., Denys M., Detter J.C., Escobar J., Flowers D., Fotopulos D., Garcia C., Georgescu A.M., Glavina T., Gomez M., Gonzales E., Groza M., Hammon N., Hawkins T., Haydu L., Ho I., Huang W., Israni S., Jett J., Kadner K., Kimball H., Kobayashi A., Larionov V., Leem S.-H., Lopez F., Lou Y., Lowry S., Malfatti S., Martinez D., McCready P.M., Medina C., Morgan J., Nelson K., Nolan M., Ovcharenko I., Pitluck S., Pollard M., Popkie A.P., Predki P., Quan G., Ramirez L., Rash S., Retterer J., Rodriguez A., Rogers S., Salamov A., Salazar A., She X., Smith D., Slezak T., Solovyev V., Thayer N., Tice H., Tsai M., Ustaszewska A., Vo N., Wagner M., Wheeler J., Wu K., Xie G., Yang J., Dubchak I., Furey T.S., DeJong P., Dickson M., Gordon D., Eichler E.E., Pennacchio L.A., Richardson P., Stubbs L., Rokhsar D.S., Myers R.M., Rubin E.M., Lucas S.M.
    Nature 428:529-535(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "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), VARIANT GLN-111.
    Tissue: Brain.

Entry informationi

Entry nameiSYT5_HUMAN
AccessioniPrimary (citable) accession number: O00445
Secondary accession number(s): B3KWJ8, B7Z300, Q86X72
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: July 11, 2003
Last modified: March 4, 2015
This is version 135 of the entry and version 2 of the sequence. [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

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. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.