Synaptotagmins, such as SYT5, are a family of type III membrane proteins characterized by cytoplasmic repeats related to protein kinase C (see MIM 176960) regulatory (C2) domains, which are thought to bind calcium. Synaptotagmins may act both as negative regulators of vesicle fusion, allowing fusion in the presence of calcium, and as calcium receptors or sensor molecules (summa... See more...

Aliases for SYT5 Gene

Aliases for SYT5 Gene

  • Synaptotagmin 5 2 3 5
  • Synaptotagmin V 2 3 4
  • Synaptotagmin-5 3 4
  • SytV 3 4
  • SYT5 5

External Ids for SYT5 Gene

Previous GeneCards Identifiers for SYT5 Gene

  • GC19M056548
  • GC19M056109
  • GC19M060360
  • GC19M060376
  • GC19M055684
  • GC19M052007

Summaries for SYT5 Gene

Entrez Gene Summary for SYT5 Gene

  • Synaptotagmins, such as SYT5, are a family of type III membrane proteins characterized by cytoplasmic repeats related to protein kinase C (see MIM 176960) regulatory (C2) domains, which are thought to bind calcium. Synaptotagmins may act both as negative regulators of vesicle fusion, allowing fusion in the presence of calcium, and as calcium receptors or sensor molecules (summary by Hudson and Birnbaum, 1995 [PubMed 7597049]).[supplied by OMIM, Feb 2011]

GeneCards Summary for SYT5 Gene

SYT5 (Synaptotagmin 5) is a Protein Coding gene. Among its related pathways are Metabolism and Integration of energy metabolism. Gene Ontology (GO) annotations related to this gene include calcium ion binding and transporter activity. An important paralog of this gene is SYT2.

UniProtKB/Swiss-Prot Summary for SYT5 Gene

  • May be involved in Ca(2+)-dependent exocytosis of secretory vesicles through Ca(2+) and phospholipid binding to the C2 domain or may serve as Ca(2+) sensors in the process of vesicular trafficking and exocytosis. Regulates the Ca(2+)-dependent secretion of norepinephrine in PC12 cells. Required for export from the endocytic recycling compartment to the cell surface (By similarity).

Gene Wiki entry for SYT5 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SYT5 Gene

Genomics for SYT5 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SYT5 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SYT5 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SYT5

Top Transcription factor binding sites by QIAGEN in the SYT5 gene promoter:
  • E2F
  • E2F-1
  • E2F-2
  • E2F-3a
  • NRSF form 1
  • NRSF form 2

Genomic Locations for SYT5 Gene

Latest Assembly
chr19:55,171,196-55,180,441
(GRCh38/hg38)
Size:
9,246 bases
Orientation:
Minus strand

Previous Assembly
chr19:55,682,564-55,691,657
(GRCh37/hg19 by Entrez Gene)
Size:
9,094 bases
Orientation:
Minus strand

chr19:55,682,567-55,691,809
(GRCh37/hg19 by Ensembl)
Size:
9,243 bases
Orientation:
Minus strand

Genomic View for SYT5 Gene

Genes around SYT5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SYT5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SYT5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYT5 Gene

Proteins for SYT5 Gene

  • Protein details for SYT5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O00445-SYT5_HUMAN
    Recommended name:
    Synaptotagmin-5
    Protein Accession:
    O00445
    Secondary Accessions:
    • B3KWJ8
    • B7Z300
    • Q86X72

    Protein attributes for SYT5 Gene

    Size:
    386 amino acids
    Molecular mass:
    42900 Da
    Cofactor:
    Name=Ca(2+); Xref=ChEBI:CHEBI:29108;
    Quaternary structure:
    • Homodimer (By similarity). Interacts with both alpha- and beta-tubulin (By similarity).

    Three dimensional structures from OCA and Proteopedia for SYT5 Gene

    Alternative splice isoforms for SYT5 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SYT5 Gene

Post-translational modifications for SYT5 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for SYT5 Gene

Domains & Families for SYT5 Gene

Gene Families for SYT5 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted membrane proteins

Protein Domains for SYT5 Gene

InterPro:
Blocks:
  • C2 domain
  • Synaptotagmin signature

Suggested Antigen Peptide Sequences for SYT5 Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ50152, highly similar to Synaptotagmin-5 (B7Z300_HUMAN)
  • Synaptotagmin V, isoform CRA_b (Q05BS5_HUMAN)
  • Synaptotagmin V (SYT5_HUMAN)

Graphical View of Domain Structure for InterPro Entry

O00445

UniProtKB/Swiss-Prot:

SYT5_HUMAN :
  • Belongs to the synaptotagmin family.
Family:
  • Belongs to the synaptotagmin family.
genes like me logo Genes that share domains with SYT5: view

Function for SYT5 Gene

Molecular function for SYT5 Gene

UniProtKB/Swiss-Prot Function:
May be involved in Ca(2+)-dependent exocytosis of secretory vesicles through Ca(2+) and phospholipid binding to the C2 domain or may serve as Ca(2+) sensors in the process of vesicular trafficking and exocytosis. Regulates the Ca(2+)-dependent secretion of norepinephrine in PC12 cells. Required for export from the endocytic recycling compartment to the cell surface (By similarity).
GENATLAS Biochemistry:
synaptotagmin 5,multifunctional intrinsic membrane protein of synaptic vesicles and chromaffin granules,involved in exocytosis and endocytosis

Phenotypes From GWAS Catalog for SYT5 Gene

Gene Ontology (GO) - Molecular Function for SYT5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000149 SNARE binding IBA 21873635
GO:0001786 phosphatidylserine binding IBA 21873635
GO:0005509 calcium ion binding IBA,IDA 27793683
GO:0005544 calcium-dependent phospholipid binding IBA 21873635
GO:0005546 phosphatidylinositol-4,5-bisphosphate binding IEA --
genes like me logo Genes that share ontologies with SYT5: view
genes like me logo Genes that share phenotypes with SYT5: view

Animal Models for SYT5 Gene

MGI Knock Outs for SYT5:
  • Syt5 Syt5<tm2.1Sud>

Animal Models for research

  • Taconic Biosciences Mouse Models for SYT5

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SYT5

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SYT5 Gene

Localization for SYT5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYT5 Gene

Cytoplasmic vesicle, secretory vesicle, synaptic vesicle membrane. Single-pass membrane protein. Recycling endosome membrane. Single-pass membrane protein. Note=In mast cells, localizes to the endocytic recycling compartment. {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SYT5 gene
Compartment Confidence
plasma membrane 4
endosome 4
cytosol 3
extracellular 2
cytoskeleton 2
mitochondrion 2
nucleus 2
endoplasmic reticulum 2
lysosome 2
golgi apparatus 2
peroxisome 1

Gene Ontology (GO) - Cellular Components for SYT5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005768 endosome IEA --
GO:0005886 plasma membrane IBA 21873635
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0030054 cell junction IEA --
genes like me logo Genes that share ontologies with SYT5: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SYT5 Gene

Pathways & Interactions for SYT5 Gene

PathCards logo

SuperPathways for SYT5 Gene

genes like me logo Genes that share pathways with SYT5: view

Pathways by source for SYT5 Gene

Gene Ontology (GO) - Biological Process for SYT5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007268 chemical synaptic transmission TAS 9177789
GO:0014059 regulation of dopamine secretion IBA 21873635
GO:0016192 vesicle-mediated transport IBA 21873635
GO:0017156 calcium ion regulated exocytosis IBA 21873635
GO:0017158 regulation of calcium ion-dependent exocytosis IEA,IBA 21873635
genes like me logo Genes that share ontologies with SYT5: view

No data available for SIGNOR curated interactions for SYT5 Gene

Drugs & Compounds for SYT5 Gene

(2) Drugs for SYT5 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Norepinephrine Approved Pharma 1019
Calcium Nutra 6959
genes like me logo Genes that share compounds with SYT5: view

Transcripts for SYT5 Gene

mRNA/cDNA for SYT5 Gene

2 REFSEQ mRNAs :
12 NCBI additional mRNA sequence :
11 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SYT5

Alternative Splicing Database (ASD) splice patterns (SP) for SYT5 Gene

ExUns: 1 ^ 2 ^ 3a · 3b · 3c · 3d ^ 4 ^ 5a · 5b ^ 6a · 6b · 6c ^ 7a · 7b ^ 8 ^ 9 ^ 10a · 10b
SP1: - -
SP2: -
SP3: - - -
SP4: -
SP5: - -
SP6:

Relevant External Links for SYT5 Gene

GeneLoc Exon Structure for
SYT5

Expression for SYT5 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SYT5 Gene

mRNA differential expression in normal tissues according to GTEx for SYT5 Gene

This gene is overexpressed in Brain - Cortex (x5.9), Brain - Putamen (basal ganglia) (x5.7), Brain - Nucleus accumbens (basal ganglia) (x5.5), Brain - Frontal Cortex (BA9) (x5.3), Brain - Caudate (basal ganglia) (x5.2), Brain - Hippocampus (x5.1), Brain - Anterior cingulate cortex (BA24) (x4.8), and Pituitary (x4.0).

Protein differential expression in normal tissues from HIPED for SYT5 Gene

This gene is overexpressed in Brain (53.1) and Bone (9.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for SYT5 Gene



Protein tissue co-expression partners for SYT5 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SYT5

SOURCE GeneReport for Unigene cluster for SYT5 Gene:

Hs.631566

Evidence on tissue expression from TISSUES for SYT5 Gene

  • Nervous system(4.8)
  • Pancreas(4)
  • Adrenal gland(2.4)
  • Skin(2.2)
genes like me logo Genes that share expression patterns with SYT5: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SYT5 Gene

Orthologs for SYT5 Gene

This gene was present in the common ancestor of animals.

Orthologs for SYT5 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia SYT5 29 30
  • 99.27 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia SYT5 29 30
  • 92.51 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia SYT5 29 30
  • 90.5 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Syt5 29
  • 86.16 (n)
Mouse
(Mus musculus)
Mammalia Syt5 29 16 30
  • 85.7 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia SYT5 30
  • 57 (a)
OneToOne
Zebrafish
(Danio rerio)
Actinopterygii syt1b 30
  • 48 (a)
OneToMany
syt5a 30
  • 47 (a)
OneToMany
syt5b 30
  • 45 (a)
OneToMany
Fruit Fly
(Drosophila melanogaster)
Insecta syt 31
  • 59 (a)
CG5559 31
  • 40 (a)
CG3020 31
  • 35 (a)
Worm
(Caenorhabditis elegans)
Secernentea snt-1 31
  • 53 (a)
Y75B7AL.3 31
  • 53 (a)
F42G9.7 31
  • 45 (a)
C08G5.4 31
  • 39 (a)
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.8468 30
  • 52 (a)
OneToMany
Species where no ortholog for SYT5 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Oppossum (Monodelphis domestica)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)

Evolution for SYT5 Gene

ENSEMBL:
Gene Tree for SYT5 (if available)
TreeFam:
Gene Tree for SYT5 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SYT5: view image
Alliance of Genome Resources:
Additional Orthologs for SYT5

Paralogs for SYT5 Gene

(21) SIMAP similar genes for SYT5 Gene using alignment to 8 proteins:

  • SYT5_HUMAN
  • B7Z300_HUMAN
  • K7EJ95_HUMAN
  • K7EJC4_HUMAN
  • K7EJS7_HUMAN
  • K7EQ59_HUMAN
  • M0QYJ7_HUMAN
  • Q05BS5_HUMAN
genes like me logo Genes that share paralogs with SYT5: view

Variants for SYT5 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SYT5 Gene

SNP ID Clinical significance and condition Chr 19 pos Variation AA Info Type
rs11542503 -- p.Arg111Gln
rs2301279 -- p.Glu4Asp

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for SYT5 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Variation tolerance for SYT5 Gene

Residual Variation Intolerance Score: 76.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.23; 62.20% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SYT5 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SYT5
Leiden Open Variation Database (LOVD)
SYT5

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for SYT5 Gene

Disorders for SYT5 Gene

Additional Disease Information for SYT5

No disorders were found for SYT5 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SYT5 Gene

Publications for SYT5 Gene

  1. Human synaptotagmin V (SYT5): sequence, genomic structure, and chromosomal location. (PMID: 9177789) Craxton M … Goedert M (Genomics 1997) 2 3 4 22
  2. Structural analysis of Ca2+-binding pocket of synaptotagmin 5 C2A domain. (PMID: 27793683) Qiu X … Niu L (International journal of biological macromolecules 2017) 3 4
  3. Evidence for the association of synaptotagmin with glutathione S-transferases: implications for a novel function in human breast cancer. (PMID: 15820774) Sreenath AS … Reddanna P (Clinical biochemistry 2005) 3 22
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4

Products for SYT5 Gene

Sources for SYT5 Gene