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Protein

Synaptotagmin-6

Gene

SYT6

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. May mediate Ca2+-regulation of exocytosis in acrosomal reaction in sperm (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 bindingi260 – 2601Calcium 1By similarity
Metal bindingi260 – 2601Calcium 2By similarity
Metal bindingi266 – 2661Calcium 1By similarity
Metal bindingi318 – 3181Calcium 1By similarity
Metal bindingi318 – 3181Calcium 2By similarity
Metal bindingi319 – 3191Calcium 1; via carbonyl oxygenBy similarity
Metal bindingi320 – 3201Calcium 1By similarity
Metal bindingi320 – 3201Calcium 2By similarity
Metal bindingi320 – 3201Calcium 3By similarity
Metal bindingi323 – 3231Calcium 3By similarity
Metal bindingi326 – 3261Calcium 2By similarity
Metal bindingi326 – 3261Calcium 3By similarity

GO - Molecular functioni

  1. calcium ion binding Source: GO_Central
  2. clathrin binding Source: BHF-UCL
  3. protein homodimerization activity Source: BHF-UCL
  4. syntaxin binding Source: BHF-UCL
  5. transporter activity Source: InterPro

GO - Biological processi

  1. acrosomal vesicle exocytosis Source: BHF-UCL
  2. calcium ion-dependent exocytosis of neurotransmitter Source: GO_Central
  3. regulation of calcium ion-dependent exocytosis Source: GO_Central
  4. synaptic vesicle exocytosis Source: GO_Central
  5. vesicle fusion Source: GO_Central
Complete GO annotation...

Keywords - Ligandi

Calcium, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Synaptotagmin-6
Alternative name(s):
Synaptotagmin VI
Short name:
SytVI
Gene namesi
Name:SYT6
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Chromosome 1

Organism-specific databases

HGNCiHGNC:18638. SYT6.

Subcellular locationi

Isoform 1 :
  1. Membrane By similarity; Single-pass membrane protein By similarity

  2. Note: Localized predominantly to endoplasmic reticulum (ER) and/or Golgi-like perinuclear compartment.By similarity
Isoform 2 :
  1. Cytoplasmcytosol By similarity
  2. Cell membrane By similarity; Peripheral membrane protein By similarity

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 5959VesicularSequence AnalysisAdd
BLAST
Transmembranei60 – 8021HelicalSequence AnalysisAdd
BLAST
Topological domaini81 – 510430CytoplasmicSequence AnalysisAdd
BLAST

GO - Cellular componenti

  1. cell junction Source: UniProtKB-KW
  2. cytosol Source: UniProtKB
  3. extrinsic component of membrane Source: UniProtKB
  4. integral component of membrane Source: UniProtKB
  5. perinuclear endoplasmic reticulum Source: BHF-UCL
  6. plasma membrane Source: UniProtKB
  7. synaptic vesicle membrane Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Cell membrane, Cytoplasm, Cytoplasmic vesicle, Membrane, Synapse

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA38614.

Polymorphism and mutation databases

BioMutaiSYT6.
DMDMi209572719.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 510510Synaptotagmin-6PRO_0000183954Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei216 – 2161Phosphoserine1 Publication

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiQ5T7P8.
PRIDEiQ5T7P8.

PTM databases

PhosphoSiteiQ5T7P8.

Expressioni

Gene expression databases

BgeeiQ5T7P8.
CleanExiHS_SYT6.
ExpressionAtlasiQ5T7P8. baseline and differential.
GenevestigatoriQ5T7P8.

Organism-specific databases

HPAiCAB008675.

Interactioni

Subunit structurei

Homodimer (isoform 1). Isoform 1 forms heterodimers with SytIII, SytV and SytX. Interacts with STX1A, STX1B and STX2; the interaction is Ca2+-dependent. Isoform 2 is not able to form homodimer and heterodimers (By similarity).By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
DVL3Q929973EBI-10246152,EBI-739789
FXR2P511163EBI-10246152,EBI-740459
GOLGA2Q083793EBI-10246152,EBI-618309
KCTD9Q7L2733EBI-10246152,EBI-4397613
KRT40Q6A1623EBI-10246152,EBI-10171697
MTUS2Q5JR593EBI-10246152,EBI-742948
TNIP1Q150253EBI-10246152,EBI-357849
TRIM32Q130493EBI-10246152,EBI-742790
TSGA10Q9BZW73EBI-10246152,EBI-744794
ZBTB43O432983EBI-10246152,EBI-740718
ZBTB8AQ96BR93EBI-10246152,EBI-742740

Protein-protein interaction databases

BioGridi127139. 20 interactions.
IntActiQ5T7P8. 11 interactions.
STRINGi9606.ENSP00000358559.

Structurei

3D structure databases

ProteinModelPortaliQ5T7P8.
SMRiQ5T7P8. Positions 230-500.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini231 – 332102C2 1PROSITE-ProRule annotationAdd
BLAST
Domaini363 – 466104C2 2PROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni482 – 51029Necessary for cell membrane association (isoform 2)By similarityAdd
BLAST

Sequence similaritiesi

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

Keywords - Domaini

Repeat, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiCOG5038.
GeneTreeiENSGT00760000118973.
HOGENOMiHOG000232128.
HOVERGENiHBG005010.
InParanoidiQ5T7P8.
OMAiSTRHISF.
OrthoDBiEOG78PV8W.
PhylomeDBiQ5T7P8.
TreeFamiTF315600.

Family and domain databases

Gene3Di2.60.40.150. 2 hits.
InterProiIPR000008. C2_dom.
IPR001565. Synaptotagmin.
IPR028701. SYT6.
[Graphical view]
PANTHERiPTHR10024:SF45. PTHR10024:SF45. 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: Q5T7P8-1) [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
MSGVWGAGGP RCQEALAVLA SLCRARPPPL GLDVETCRSF ELQPPERSPS
60 70 80 90 100
AAGAGTSVSL LAVVVIVCGV ALVAVFLFLF WKLCWMPWRN KEASSPSSAN
110 120 130 140 150
PPLEALQSPS FRGNMADKLK DPSTLGFLEA AVKISHTSPD IPAEVQMSVK
160 170 180 190 200
EHIMRHTRLQ RQTTEPASST RHTSFKRHLP RQMHVSSVDY GNELPPAAEQ
210 220 230 240 250
PTSIGRIKPE LYKQKSVDGE DAKSEATKSC GKINFSLRYD YETETLIVRI
260 270 280 290 300
LKAFDLPAKD FCGSSDPYVK IYLLPDRKCK LQTRVHRKTL NPTFDENFHF
310 320 330 340 350
PVPYEELADR KLHLSVFDFD RFSRHDMIGE VILDNLFEAS DLSRETSIWK
360 370 380 390 400
DIQYATSESV DLGEIMFSLC YLPTAGRLTL TVIKCRNLKA MDITGYSDPY
410 420 430 440 450
VKVSLLCDGR RLKKKKTTIK KNTLNPVYNE AIIFDIPPEN MDQVSLLISV
460 470 480 490 500
MDYDRVGHNE IIGVCRVGIT AEGLGRDHWN EMLAYPRKPI AHWHSLVEVK
510
KSFKEGNPRL

Note: No experimental confirmation available.

Length:510
Mass (Da):57,325
Last modified:October 14, 2008 - v3
Checksum:iDE5478F5B95693D3
GO
Isoform 2 (identifier: Q5T7P8-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-85: Missing.

Show »
Length:425
Mass (Da):48,442
Checksum:iF41702F895DAC695
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 8585Missing in isoform 2. 1 PublicationVSP_036619Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK056448 mRNA. Translation: BAG51713.1.
AL162594 Genomic DNA. Translation: CAI18964.1.
AL162594 Genomic DNA. Translation: CAM27152.1.
CH471122 Genomic DNA. Translation: EAW56596.1.
CCDSiCCDS871.1. [Q5T7P8-2]
RefSeqiNP_001257734.1. NM_001270805.1. [Q5T7P8-2]
NP_995320.1. NM_205848.3. [Q5T7P8-2]
UniGeneiHs.370963.
Hs.736999.

Genome annotation databases

EnsembliENST00000369547; ENSP00000358560; ENSG00000134207. [Q5T7P8-2]
ENST00000607941; ENSP00000476507; ENSG00000134207. [Q5T7P8-2]
ENST00000609117; ENSP00000477344; ENSG00000134207. [Q5T7P8-2]
ENST00000610222; ENSP00000476396; ENSG00000134207. [Q5T7P8-1]
GeneIDi148281.
KEGGihsa:148281.
UCSCiuc001eev.3. human. [Q5T7P8-1]

Polymorphism and mutation databases

BioMutaiSYT6.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK056448 mRNA. Translation: BAG51713.1.
AL162594 Genomic DNA. Translation: CAI18964.1.
AL162594 Genomic DNA. Translation: CAM27152.1.
CH471122 Genomic DNA. Translation: EAW56596.1.
CCDSiCCDS871.1. [Q5T7P8-2]
RefSeqiNP_001257734.1. NM_001270805.1. [Q5T7P8-2]
NP_995320.1. NM_205848.3. [Q5T7P8-2]
UniGeneiHs.370963.
Hs.736999.

3D structure databases

ProteinModelPortaliQ5T7P8.
SMRiQ5T7P8. Positions 230-500.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi127139. 20 interactions.
IntActiQ5T7P8. 11 interactions.
STRINGi9606.ENSP00000358559.

PTM databases

PhosphoSiteiQ5T7P8.

Polymorphism and mutation databases

BioMutaiSYT6.
DMDMi209572719.

Proteomic databases

PaxDbiQ5T7P8.
PRIDEiQ5T7P8.

Protocols and materials databases

DNASUi148281.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000369547; ENSP00000358560; ENSG00000134207. [Q5T7P8-2]
ENST00000607941; ENSP00000476507; ENSG00000134207. [Q5T7P8-2]
ENST00000609117; ENSP00000477344; ENSG00000134207. [Q5T7P8-2]
ENST00000610222; ENSP00000476396; ENSG00000134207. [Q5T7P8-1]
GeneIDi148281.
KEGGihsa:148281.
UCSCiuc001eev.3. human. [Q5T7P8-1]

Organism-specific databases

CTDi148281.
GeneCardsiGC01M114631.
HGNCiHGNC:18638. SYT6.
HPAiCAB008675.
MIMi607718. gene.
neXtProtiNX_Q5T7P8.
PharmGKBiPA38614.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiCOG5038.
GeneTreeiENSGT00760000118973.
HOGENOMiHOG000232128.
HOVERGENiHBG005010.
InParanoidiQ5T7P8.
OMAiSTRHISF.
OrthoDBiEOG78PV8W.
PhylomeDBiQ5T7P8.
TreeFamiTF315600.

Miscellaneous databases

GenomeRNAii148281.
NextBioi85899.
PROiQ5T7P8.
SOURCEiSearch...

Gene expression databases

BgeeiQ5T7P8.
CleanExiHS_SYT6.
ExpressionAtlasiQ5T7P8. baseline and differential.
GenevestigatoriQ5T7P8.

Family and domain databases

Gene3Di2.60.40.150. 2 hits.
InterProiIPR000008. C2_dom.
IPR001565. Synaptotagmin.
IPR028701. SYT6.
[Graphical view]
PANTHERiPTHR10024:SF45. PTHR10024:SF45. 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

  1. "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: Teratocarcinoma.
  2. "The DNA sequence and biological annotation of human chromosome 1."
    Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K.
    , Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C., Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W., Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J., Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J., Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y., Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J., Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H., Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L., Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J., Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S., Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K., Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R., Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M., Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S., Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J., Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W., McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N., Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V., Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J., Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E., Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S., Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M., White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H., Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E., Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G., Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R.
    Nature 441:315-321(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation."
    Rigbolt K.T., Prokhorova T.A., Akimov V., Henningsen J., Johansen P.T., Kratchmarova I., Kassem M., Mann M., Olsen J.V., Blagoev B.
    Sci. Signal. 4:RS3-RS3(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-216, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiSYT6_HUMAN
AccessioniPrimary (citable) accession number: Q5T7P8
Secondary accession number(s): B1AMB8, B3KPK1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 7, 2005
Last sequence update: October 14, 2008
Last modified: April 29, 2015
This is version 109 of the entry and version 3 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 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. 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.