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Protein

Synaptotagmin-4

Gene

Syt4

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

Functioni

May be involved in Ca2+-independent 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 (PubMed:7993622). Plays a role in dendrite formation by melanocytes (By similarity).By similarity1 Publication

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 bindingi184Calcium 1By similarity1
Metal bindingi184Calcium 2By similarity1
Metal bindingi191Calcium 1By similarity1
Metal bindingi245Calcium 1; via carbonyl oxygenBy similarity1
Metal bindingi246Calcium 1By similarity1
Metal bindingi246Calcium 2By similarity1
Metal bindingi246Calcium 3By similarity1
Metal bindingi249Calcium 3By similarity1
Metal bindingi252Calcium 2By similarity1
Metal bindingi252Calcium 3By similarity1

GO - Molecular functioni

  • calcium-dependent phospholipid binding Source: RGD
  • calcium ion binding Source: RGD
  • clathrin binding Source: BHF-UCL
  • phosphatidylserine binding Source: RGD
  • protein heterodimerization activity Source: ParkinsonsUK-UCL
  • protein homodimerization activity Source: ParkinsonsUK-UCL
  • SNARE binding Source: RGD
  • syntaxin-1 binding Source: ParkinsonsUK-UCL
  • syntaxin-3 binding Source: ParkinsonsUK-UCL
  • syntaxin binding Source: ParkinsonsUK-UCL

GO - Biological processi

  • brain development Source: RGD
  • calcium ion regulated exocytosis Source: RGD
  • calcium ion-regulated exocytosis of neurotransmitter Source: GO_Central
  • memory Source: RGD
  • negative regulation of calcium ion-dependent exocytosis Source: RGD
  • negative regulation of catecholamine secretion Source: ParkinsonsUK-UCL
  • negative regulation of dense core granule exocytosis Source: ParkinsonsUK-UCL
  • negative regulation of neurotransmitter secretion Source: ParkinsonsUK-UCL
  • negative regulation of protein secretion Source: RGD
  • negative regulation of retrograde trans-synaptic signaling by neuropeptide Source: RGD
  • negative regulation of short-term neuronal synaptic plasticity Source: RGD
  • negative regulation of synaptic vesicle exocytosis Source: RGD
  • negative regulation of vesicle fusion Source: ParkinsonsUK-UCL
  • neurotransmitter secretion Source: RGD
  • positive regulation of dendrite extension Source: RGD
  • positive regulation of dense core granule exocytosis Source: RGD
  • positive regulation of glutamate secretion Source: RGD
  • regulation of calcium ion-dependent exocytosis Source: RGD
  • regulation of dopamine secretion Source: RGD
  • regulation of endocytosis Source: ParkinsonsUK-UCL
  • regulation of vesicle fusion Source: ParkinsonsUK-UCL
  • secretory granule maturation Source: ParkinsonsUK-UCL
  • vesicle fusion with vesicle Source: ParkinsonsUK-UCL

Keywordsi

Biological processDifferentiation
LigandCalcium, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Synaptotagmin-4
Alternative name(s):
Synaptotagmin IV
Short name:
SytIV
Gene namesi
Name:Syt4
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 18

Organism-specific databases

RGDi68397 Syt4

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini1 – 16VesicularSequence analysisAdd BLAST16
Transmembranei17 – 37HelicalSequence analysisAdd BLAST21
Topological domaini38 – 425CytoplasmicSequence analysisAdd BLAST388

Keywords - Cellular componenti

Cell junction, Cytoplasmic vesicle, Membrane, Synapse

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001839501 – 425Synaptotagmin-4Add BLAST425

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei135PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiP50232
PRIDEiP50232

PTM databases

iPTMnetiP50232
PhosphoSitePlusiP50232

Expressioni

Tissue specificityi

Widely expressed (PubMed:7892240). Expressed in the brain (PubMed:7892240). Expressed in pituitary gland, cerebellum, cortex, hypothalamus and hippocampus (PubMed:7892240).2 Publications

Inductioni

Up-regulated by potassium depolarization, calcium ionophore, ATP and forskolin in culture cells (PubMed:7892240). Up-regulated by kainate in the hippocampus and piriform cortex (PubMed:7892240).1 Publication

Gene expression databases

BgeeiENSRNOG00000017333
GenevisibleiP50232 RN

Interactioni

Binary interactionsi

Show more details

GO - Molecular functioni

  • clathrin binding Source: BHF-UCL
  • protein heterodimerization activity Source: ParkinsonsUK-UCL
  • protein homodimerization activity Source: ParkinsonsUK-UCL
  • SNARE binding Source: RGD
  • syntaxin-1 binding Source: ParkinsonsUK-UCL
  • syntaxin-3 binding Source: ParkinsonsUK-UCL
  • syntaxin binding Source: ParkinsonsUK-UCL

Protein-protein interaction databases

IntActiP50232, 5 interactors
MINTiP50232
STRINGi10116.ENSRNOP00000023593

Structurei

Secondary structure

1425
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi290 – 298Combined sources9
Turni299 – 302Combined sources4
Beta strandi303 – 313Combined sources11
Beta strandi325 – 333Combined sources9
Beta strandi336 – 342Combined sources7
Beta strandi350 – 361Combined sources12
Beta strandi364 – 367Combined sources4
Beta strandi370 – 378Combined sources9
Beta strandi386 – 394Combined sources9
Helixi400 – 410Combined sources11
Beta strandi416 – 421Combined sources6

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1W15X-ray1.93A288-425[»]
1W16X-ray2.30A288-425[»]
ProteinModelPortaliP50232
SMRiP50232
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP50232

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini155 – 258C2 1PROSITE-ProRule annotationAdd BLAST104
Domaini289 – 392C2 2PROSITE-ProRule annotationAdd BLAST104

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni147 – 297Phospholipid bindingCuratedAdd BLAST151

Sequence similaritiesi

Belongs to the synaptotagmin family.Curated

Keywords - Domaini

Repeat, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG1028 Eukaryota
ENOG410XRME LUCA
GeneTreeiENSGT00760000118973
HOGENOMiHOG000232126
HOVERGENiHBG005010
InParanoidiP50232
KOiK19904
OMAiQIAKWHM
OrthoDBiEOG091G09ZN
PhylomeDBiP50232
TreeFamiTF315600

Family and domain databases

Gene3Di2.60.40.150, 2 hits
InterProiView protein in InterPro
IPR000008 C2_dom
IPR035892 C2_domain_sf
IPR001565 Synaptotagmin
IPR028683 SYT4
PANTHERiPTHR10024:SF114 PTHR10024:SF114, 1 hit
PfamiView protein in Pfam
PF00168 C2, 2 hits
PRINTSiPR00399 SYNAPTOTAGMN
SMARTiView protein in SMART
SM00239 C2, 2 hits
PROSITEiView protein in PROSITE
PS50004 C2, 2 hits

Sequencei

Sequence statusi: Complete.

P50232-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAPITTSRVE FDEIPTVVGI FSAFGLVFTV SLFAWICCQR RSAKSNKTPP
60 70 80 90 100
YKFVHVLKGV DIYPENLSSK KKFGGDDKSE AKRKAALPNL SLHLDLEKRD
110 120 130 140 150
LNGNFPKTNP KAGSSSDLEN VTPKLFPETE KEAVSPESLK SSTSLTSEEK
160 170 180 190 200
QEKLGTLFLS LEYNFEKKAF VVNIKEAQGL PAMDEQSMTS DPYIKMTILP
210 220 230 240 250
EKKHKVKTRV LRKTLDPVFD ETFTFYGVPY PHIQELSLHF TVLSFDRFSR
260 270 280 290 300
DDVIGEVLVP LSGIELSDGK MLMTREIIKR NAKKSSGRGE LLVSLCYQST
310 320 330 340 350
TNTLTVVVLK ARHLPKSDVS GLSDPYVKVN LYHAKKRISK KKTHVKKCTP
360 370 380 390 400
NAVFNELFVF DIPCESLEEI SVEFLVLDSE RGSRNEVIGR LVLGATAEGS
410 420
GGGHWKEICD FPRRQIAKWH MLCDG
Length:425
Mass (Da):47,685
Last modified:October 1, 1996 - v1
Checksum:i6AC88E00878936BB
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U14398 mRNA Translation: AAA68519.1
L38247 mRNA Translation: AAA67327.1
PIRiI59355
RefSeqiNP_113881.1, NM_031693.2
UniGeneiRn.126675

Genome annotation databases

EnsembliENSRNOT00000023594; ENSRNOP00000023593; ENSRNOG00000017333
GeneIDi64440
KEGGirno:64440
UCSCiRGD:68397 rat

Similar proteinsi

Entry informationi

Entry nameiSYT4_RAT
AccessioniPrimary (citable) accession number: P50232
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: March 28, 2018
This is version 139 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome
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Main funding by: National Institutes of Health