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Protein

Synaptotagmin-4

Gene

SYT4

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 (By similarity). Plays a role in dendrite formation by melanocytes (PubMed:23999003).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

GO - Biological processi

  • brain development Source: Ensembl
  • calcium ion-regulated exocytosis of neurotransmitter Source: GO_Central
  • negative regulation of calcium ion-dependent exocytosis Source: ParkinsonsUK-UCL
  • negative regulation of catecholamine secretion Source: ParkinsonsUK-UCL
  • negative regulation of protein secretion Source: Ensembl
  • negative regulation of vesicle fusion Source: Ensembl
  • positive regulation of calcium ion-dependent exocytosis Source: ParkinsonsUK-UCL
  • positive regulation of dendrite extension Source: UniProtKB
  • vesicle fusion Source: GO_Central
Complete GO annotation...

Keywords - Biological processi

Differentiation

Keywords - Ligandi

Calcium, Metal-binding

Enzyme and pathway databases

BioCyciZFISH:ENSG00000132872-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Synaptotagmin-4
Alternative name(s):
Synaptotagmin IV
Short name:
SytIV
Gene namesi
Name:SYT4
Synonyms:KIAA1342
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 18

Organism-specific databases

HGNCiHGNC:11512. SYT4.

Subcellular locationi

Topology

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

GO - Cellular componenti

  • axon Source: Ensembl
  • cell junction Source: UniProtKB-KW
  • dendrite Source: Ensembl
  • dense core granule membrane Source: ParkinsonsUK-UCL
  • integral component of Golgi membrane Source: ParkinsonsUK-UCL
  • integral component of synaptic vesicle membrane Source: ParkinsonsUK-UCL
  • intracellular membrane-bounded organelle Source: HPA
  • perinuclear region of cytoplasm Source: Ensembl
  • plasma membrane Source: HPA
Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Cytoplasmic vesicle, Membrane, Synapse

Pathology & Biotechi

Organism-specific databases

DisGeNETi6860.
OpenTargetsiENSG00000132872.
PharmGKBiPA36293.

Polymorphism and mutation databases

BioMutaiSYT4.
DMDMi18202937.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001839481 – 425Synaptotagmin-4Add BLAST425

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei135PhosphoserineBy similarity1

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiQ9H2B2.
PeptideAtlasiQ9H2B2.
PRIDEiQ9H2B2.

PTM databases

iPTMnetiQ9H2B2.
PhosphoSitePlusiQ9H2B2.

Expressioni

Tissue specificityi

Expressed in melanocytes (PubMed:23999003). Expressed in brain. Within brain, expression is highest in hippocampus, with substantial levels also detected in amygdala and thalamus (PubMed:23999003).1 Publication

Gene expression databases

BgeeiENSG00000132872.
CleanExiHS_SYT4.
ExpressionAtlasiQ9H2B2. baseline and differential.
GenevisibleiQ9H2B2. HS.

Organism-specific databases

HPAiHPA010574.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
NBR1Q145963EBI-751132,EBI-742698
SGTAO437656EBI-751132,EBI-347996

GO - Molecular functioni

Protein-protein interaction databases

BioGridi112724. 4 interactors.
IntActiQ9H2B2. 2 interactors.
MINTiMINT-1451266.
STRINGi9606.ENSP00000255224.

Structurei

Secondary structure

1425
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi156 – 164Combined sources9
Helixi165 – 167Combined sources3
Beta strandi169 – 179Combined sources11
Turni185 – 188Combined sources4
Beta strandi191 – 199Combined sources9
Turni200 – 202Combined sources3
Beta strandi204 – 207Combined sources4
Beta strandi218 – 226Combined sources9
Helixi233 – 235Combined sources3
Beta strandi237 – 245Combined sources9
Beta strandi255 – 260Combined sources6
Beta strandi271 – 276Combined sources6

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1UGKNMR-A154-278[»]
ProteinModelPortaliQ9H2B2.
SMRiQ9H2B2.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9H2B2.

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
Contains 2 C2 domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG1028. Eukaryota.
ENOG410XRME. LUCA.
GeneTreeiENSGT00760000118973.
HOGENOMiHOG000232126.
HOVERGENiHBG005010.
InParanoidiQ9H2B2.
KOiK19904.
OMAiQIAKWHM.
OrthoDBiEOG091G09ZN.
PhylomeDBiQ9H2B2.
TreeFamiTF315600.

Family and domain databases

Gene3Di2.60.40.150. 2 hits.
InterProiIPR000008. C2_dom.
IPR001565. Synaptotagmin.
IPR028683. SYT4.
[Graphical view]
PANTHERiPTHR10024:SF114. PTHR10024:SF114. 1 hit.
PfamiPF00168. C2. 2 hits.
[Graphical view]
PRINTSiPR00399. 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: Q9H2B2-1) [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
MAPITTSREE FDEIPTVVGI FSAFGLVFTV SLFAWICCQR KSSKSNKTPP
60 70 80 90 100
YKFVHVLKGV DIYPENLNSK KKFGADDKNE VKNKPAVPKN SLHLDLEKRD
110 120 130 140 150
LNGNFPKTNL KPGSPSDLEN ATPKLFLEGE KESVSPESLK SSTSLTSEEK
160 170 180 190 200
QEKLGTLFFS LEYNFERKAF VVNIKEARGL PAMDEQSMTS DPYIKMTILP
210 220 230 240 250
EKKHKVKTRV LRKTLDPAFD ETFTFYGIPY TQIQELALHF TILSFDRFSR
260 270 280 290 300
DDIIGEVLIP LSGIELSEGK MLMNREIIKR NVRKSSGRGE LLISLCYQST
310 320 330 340 350
TNTLTVVVLK ARHLPKSDVS GLSDPYVKVN LYHAKKRISK KKTHVKKCTP
360 370 380 390 400
NAVFNELFVF DIPCEGLEDI SVEFLVLDSE RGSRNEVIGQ LVLGAAAEGT
410 420
GGEHWKEICD YPRRQIAKWH VLCDG
Length:425
Mass (Da):47,958
Last modified:March 1, 2001 - v1
Checksum:iDA3D4CB175CB528D
GO
Isoform 2 (identifier: Q9H2B2-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     12-29: Missing.

Note: No experimental confirmation available.
Show »
Length:407
Mass (Da):46,064
Checksum:iCE234AC75CBDEB5C
GO

Sequence cautioni

The sequence BAA92580 differs from that shown. Reason: Erroneous initiation.Curated

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_052239142S → N.Corresponds to variant rs16977447dbSNPEnsembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_05664312 – 29Missing in isoform 2. 1 PublicationAdd BLAST18

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF299075 mRNA. Translation: AAG37229.1.
AB037763 mRNA. Translation: BAA92580.1. Different initiation.
AK293791 mRNA. Translation: BAG57204.1.
AC091039 Genomic DNA. No translation available.
BC036538 mRNA. Translation: AAH36538.1.
CCDSiCCDS11922.1. [Q9H2B2-1]
RefSeqiNP_065834.1. NM_020783.3. [Q9H2B2-1]
UniGeneiHs.8059.

Genome annotation databases

EnsembliENST00000255224; ENSP00000255224; ENSG00000132872. [Q9H2B2-1]
ENST00000590752; ENSP00000466930; ENSG00000132872. [Q9H2B2-2]
GeneIDi6860.
KEGGihsa:6860.
UCSCiuc002law.4. human. [Q9H2B2-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF299075 mRNA. Translation: AAG37229.1.
AB037763 mRNA. Translation: BAA92580.1. Different initiation.
AK293791 mRNA. Translation: BAG57204.1.
AC091039 Genomic DNA. No translation available.
BC036538 mRNA. Translation: AAH36538.1.
CCDSiCCDS11922.1. [Q9H2B2-1]
RefSeqiNP_065834.1. NM_020783.3. [Q9H2B2-1]
UniGeneiHs.8059.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1UGKNMR-A154-278[»]
ProteinModelPortaliQ9H2B2.
SMRiQ9H2B2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi112724. 4 interactors.
IntActiQ9H2B2. 2 interactors.
MINTiMINT-1451266.
STRINGi9606.ENSP00000255224.

PTM databases

iPTMnetiQ9H2B2.
PhosphoSitePlusiQ9H2B2.

Polymorphism and mutation databases

BioMutaiSYT4.
DMDMi18202937.

Proteomic databases

PaxDbiQ9H2B2.
PeptideAtlasiQ9H2B2.
PRIDEiQ9H2B2.

Protocols and materials databases

DNASUi6860.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000255224; ENSP00000255224; ENSG00000132872. [Q9H2B2-1]
ENST00000590752; ENSP00000466930; ENSG00000132872. [Q9H2B2-2]
GeneIDi6860.
KEGGihsa:6860.
UCSCiuc002law.4. human. [Q9H2B2-1]

Organism-specific databases

CTDi6860.
DisGeNETi6860.
GeneCardsiSYT4.
HGNCiHGNC:11512. SYT4.
HPAiHPA010574.
MIMi600103. gene.
neXtProtiNX_Q9H2B2.
OpenTargetsiENSG00000132872.
PharmGKBiPA36293.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1028. Eukaryota.
ENOG410XRME. LUCA.
GeneTreeiENSGT00760000118973.
HOGENOMiHOG000232126.
HOVERGENiHBG005010.
InParanoidiQ9H2B2.
KOiK19904.
OMAiQIAKWHM.
OrthoDBiEOG091G09ZN.
PhylomeDBiQ9H2B2.
TreeFamiTF315600.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000132872-MONOMER.

Miscellaneous databases

ChiTaRSiSYT4. human.
EvolutionaryTraceiQ9H2B2.
GeneWikiiSYT4.
GenomeRNAii6860.
PROiQ9H2B2.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000132872.
CleanExiHS_SYT4.
ExpressionAtlasiQ9H2B2. baseline and differential.
GenevisibleiQ9H2B2. HS.

Family and domain databases

Gene3Di2.60.40.150. 2 hits.
InterProiIPR000008. C2_dom.
IPR001565. Synaptotagmin.
IPR028683. SYT4.
[Graphical view]
PANTHERiPTHR10024:SF114. PTHR10024:SF114. 1 hit.
PfamiPF00168. C2. 2 hits.
[Graphical view]
PRINTSiPR00399. SYNAPTOTAGMN.
SMARTiSM00239. C2. 2 hits.
[Graphical view]
SUPFAMiSSF49562. SSF49562. 2 hits.
PROSITEiPS50004. C2. 2 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSYT4_HUMAN
AccessioniPrimary (citable) accession number: Q9H2B2
Secondary accession number(s): B4DEU3, Q9P2K4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 18, 2001
Last sequence update: March 1, 2001
Last modified: November 30, 2016
This is version 143 of the entry and version 1 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 18
    Human chromosome 18: 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.