Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
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.

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 bindingi184 – 1841Calcium 1By similarity
Metal bindingi184 – 1841Calcium 2By similarity
Metal bindingi191 – 1911Calcium 1By similarity
Metal bindingi245 – 2451Calcium 1; via carbonyl oxygenBy similarity
Metal bindingi246 – 2461Calcium 1By similarity
Metal bindingi246 – 2461Calcium 2By similarity
Metal bindingi246 – 2461Calcium 3By similarity
Metal bindingi249 – 2491Calcium 3By similarity
Metal bindingi252 – 2521Calcium 2By similarity
Metal bindingi252 – 2521Calcium 3By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Ligandi

Calcium, Metal-binding

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
ProteomesiUP000005640 Componenti: Chromosome 18

Organism-specific databases

HGNCiHGNC:11512. SYT4.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 1616VesicularSequence AnalysisAdd
BLAST
Transmembranei17 – 3721HelicalSequence AnalysisAdd
BLAST
Topological domaini38 – 425388CytoplasmicSequence AnalysisAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Cytoplasmic vesicle, Membrane, Synapse

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA36293.

Polymorphism and mutation databases

BioMutaiSYT4.
DMDMi18202937.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 425425Synaptotagmin-4PRO_0000183948Add
BLAST

Proteomic databases

PaxDbiQ9H2B2.
PRIDEiQ9H2B2.

PTM databases

PhosphoSiteiQ9H2B2.

Expressioni

Tissue specificityi

Expressed in brain. Within brain, expression is highest in hippocampus, with substantial levels also detected in amygdala and thalamus.

Gene expression databases

BgeeiQ9H2B2.
CleanExiHS_SYT4.
ExpressionAtlasiQ9H2B2. baseline and differential.
GenevisibleiQ9H2B2. HS.

Organism-specific databases

HPAiHPA010574.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
NBR1Q145963EBI-751132,EBI-742698
SGTAO437654EBI-751132,EBI-347996

Protein-protein interaction databases

BioGridi112724. 3 interactions.
IntActiQ9H2B2. 2 interactions.
MINTiMINT-1451266.
STRINGi9606.ENSP00000255224.

Structurei

Secondary structure

1
425
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi156 – 1649Combined sources
Helixi165 – 1673Combined sources
Beta strandi169 – 17911Combined sources
Turni185 – 1884Combined sources
Beta strandi191 – 1999Combined sources
Turni200 – 2023Combined sources
Beta strandi204 – 2074Combined sources
Beta strandi218 – 2269Combined sources
Helixi233 – 2353Combined sources
Beta strandi237 – 2459Combined sources
Beta strandi255 – 2606Combined sources
Beta strandi271 – 2766Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1UGKNMR-A154-278[»]
ProteinModelPortaliQ9H2B2.
SMRiQ9H2B2. Positions 152-425.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9H2B2.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini155 – 258104C2 1PROSITE-ProRule annotationAdd
BLAST
Domaini289 – 392104C2 2PROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni147 – 297151Phospholipid bindingCuratedAdd
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.
HOGENOMiHOG000232126.
HOVERGENiHBG005010.
InParanoidiQ9H2B2.
OMAiQIAKWHM.
OrthoDBiEOG75J0N2.
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 BAA92580.1 differs from that shown. Reason: Erroneous initiation. Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti142 – 1421S → N.
Corresponds to variant rs16977447 [ dbSNP | Ensembl ].
VAR_052239

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei12 – 2918Missing in isoform 2. 1 PublicationVSP_056643Add
BLAST

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.3. human. [Q9H2B2-1]
uc010xcm.2. human.

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
EntryMethodResolution (Å)ChainPositionsPDBsum
1UGKNMR-A154-278[»]
ProteinModelPortaliQ9H2B2.
SMRiQ9H2B2. Positions 152-425.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi112724. 3 interactions.
IntActiQ9H2B2. 2 interactions.
MINTiMINT-1451266.
STRINGi9606.ENSP00000255224.

PTM databases

PhosphoSiteiQ9H2B2.

Polymorphism and mutation databases

BioMutaiSYT4.
DMDMi18202937.

Proteomic databases

PaxDbiQ9H2B2.
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.3. human. [Q9H2B2-1]
uc010xcm.2. human.

Organism-specific databases

CTDi6860.
GeneCardsiGC18M040847.
HGNCiHGNC:11512. SYT4.
HPAiHPA010574.
MIMi600103. gene.
neXtProtiNX_Q9H2B2.
PharmGKBiPA36293.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG292488.
GeneTreeiENSGT00760000118973.
HOGENOMiHOG000232126.
HOVERGENiHBG005010.
InParanoidiQ9H2B2.
OMAiQIAKWHM.
OrthoDBiEOG75J0N2.
PhylomeDBiQ9H2B2.
TreeFamiTF315600.

Miscellaneous databases

ChiTaRSiSYT4. human.
EvolutionaryTraceiQ9H2B2.
GeneWikiiSYT4.
GenomeRNAii6860.
NextBioi26771.
PROiQ9H2B2.
SOURCEiSearch...

Gene expression databases

BgeeiQ9H2B2.
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...

Publicationsi

« Hide 'large scale' publications
  1. "The human synaptotagmin IV gene defines an evolutionary break point between syntenic mouse and human chromosome regions but retains ligand inducibility and tissue specificity."
    Ferguson G.D., Chen X.-N., Korenberg J.R., Herschman H.R.
    J. Biol. Chem. 275:36920-36926(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
  2. "Prediction of the coding sequences of unidentified human genes. XVI. The complete sequences of 150 new cDNA clones from brain which code for large proteins in vitro."
    Nagase T., Kikuno R., Ishikawa K., Hirosawa M., Ohara O.
    DNA Res. 7:65-73(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Brain.
  3. "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] (ISOFORM 2).
    Tissue: Cerebellum.
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  5. "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).
    Tissue: Brain.
  6. "Solution structure of the first C2 domain of synaptotagmin IV from human fetal brain (KIAA1342)."
    RIKEN structural genomics initiative (RSGI)
    Submitted (DEC-2003) to the PDB data bank
    Cited for: STRUCTURE BY NMR OF 154-278.

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: June 24, 2015
This is version 128 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

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.