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Q9H2B2

- SYT4_HUMAN

UniProt

Q9H2B2 - SYT4_HUMAN

Protein

Synaptotagmin-4

Gene

SYT4

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 121 (01 Oct 2014)
      Sequence version 1 (01 Mar 2001)
      Previous versions | rss
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    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

    Binds 3 calcium ions per subunit. The ions are bound to the C2 domains By similarity.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

    1. calcium ion binding Source: Ensembl
    2. phosphatidylserine binding Source: Ensembl
    3. transporter activity Source: InterPro

    GO - Biological processi

    1. exocytosis Source: InterPro
    2. negative regulation of calcium ion-dependent exocytosis Source: Ensembl
    3. negative regulation of vesicle fusion Source: Ensembl
    4. neurotransmitter secretion Source: Ensembl

    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: Chromosome 18

    Organism-specific databases

    HGNCiHGNC:11512. SYT4.

    Subcellular locationi

    GO - Cellular componenti

    1. cell junction Source: UniProtKB-KW
    2. dense core granule Source: Ensembl
    3. integral component of membrane Source: UniProtKB-KW
    4. neuron projection Source: Ensembl
    5. perinuclear region of cytoplasm Source: Ensembl
    6. synaptic vesicle membrane Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cell junction, Cytoplasmic vesicle, Membrane, Synapse

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA36293.

    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

    ArrayExpressiQ9H2B2.
    BgeeiQ9H2B2.
    CleanExiHS_SYT4.
    GenevestigatoriQ9H2B2.

    Organism-specific databases

    HPAiHPA010574.

    Interactioni

    Protein-protein interaction databases

    BioGridi112724. 2 interactions.
    IntActiQ9H2B2. 1 interaction.
    MINTiMINT-1451266.
    STRINGi9606.ENSP00000255224.

    Structurei

    Secondary structure

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

    3D structure databases

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

    Miscellaneous databases

    EvolutionaryTraceiQ9H2B2.

    Topological domain

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

    Transmembrane

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transmembranei17 – 3721HelicalSequence AnalysisAdd
    BLAST

    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.
    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. Align

    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

    MAPITTSREE FDEIPTVVGI FSAFGLVFTV SLFAWICCQR KSSKSNKTPP    50
    YKFVHVLKGV DIYPENLNSK KKFGADDKNE VKNKPAVPKN SLHLDLEKRD 100
    LNGNFPKTNL KPGSPSDLEN ATPKLFLEGE KESVSPESLK SSTSLTSEEK 150
    QEKLGTLFFS LEYNFERKAF VVNIKEARGL PAMDEQSMTS DPYIKMTILP 200
    EKKHKVKTRV LRKTLDPAFD ETFTFYGIPY TQIQELALHF TILSFDRFSR 250
    DDIIGEVLIP LSGIELSEGK MLMNREIIKR NVRKSSGRGE LLISLCYQST 300
    TNTLTVVVLK ARHLPKSDVS GLSDPYVKVN LYHAKKRISK KKTHVKKCTP 350
    NAVFNELFVF DIPCEGLEDI SVEFLVLDSE RGSRNEVIGQ LVLGAAAEGT 400
    GGEHWKEICD YPRRQIAKWH VLCDG 425
    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.

    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:
    EMBL
    GenBank
    DDBJ
    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.
    RefSeqiNP_065834.1. NM_020783.3.
    UniGeneiHs.8059.

    Genome annotation databases

    EnsembliENST00000255224; ENSP00000255224; ENSG00000132872.
    ENST00000590752; ENSP00000466930; ENSG00000132872.
    GeneIDi6860.
    KEGGihsa:6860.
    UCSCiuc002law.3. human.

    Polymorphism databases

    DMDMi18202937.

    Keywords - Coding sequence diversityi

    Alternative splicing, Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    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 .
    CCDSi CCDS11922.1.
    RefSeqi NP_065834.1. NM_020783.3.
    UniGenei Hs.8059.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1UGK NMR - A 154-278 [» ]
    ProteinModelPortali Q9H2B2.
    SMRi Q9H2B2. Positions 152-425.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 112724. 2 interactions.
    IntActi Q9H2B2. 1 interaction.
    MINTi MINT-1451266.
    STRINGi 9606.ENSP00000255224.

    PTM databases

    PhosphoSitei Q9H2B2.

    Polymorphism databases

    DMDMi 18202937.

    Proteomic databases

    PaxDbi Q9H2B2.
    PRIDEi Q9H2B2.

    Protocols and materials databases

    DNASUi 6860.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000255224 ; ENSP00000255224 ; ENSG00000132872 .
    ENST00000590752 ; ENSP00000466930 ; ENSG00000132872 .
    GeneIDi 6860.
    KEGGi hsa:6860.
    UCSCi uc002law.3. human.

    Organism-specific databases

    CTDi 6860.
    GeneCardsi GC18M040847.
    HGNCi HGNC:11512. SYT4.
    HPAi HPA010574.
    MIMi 600103. gene.
    neXtProti NX_Q9H2B2.
    PharmGKBi PA36293.
    HUGEi Search...
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG292488.
    HOGENOMi HOG000232126.
    HOVERGENi HBG005010.
    InParanoidi Q9H2B2.
    OMAi QIAKWHM.
    OrthoDBi EOG75J0N2.
    PhylomeDBi Q9H2B2.
    TreeFami TF315600.

    Miscellaneous databases

    EvolutionaryTracei Q9H2B2.
    GeneWikii SYT4.
    GenomeRNAii 6860.
    NextBioi 26771.
    PROi Q9H2B2.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi Q9H2B2.
    Bgeei Q9H2B2.
    CleanExi HS_SYT4.
    Genevestigatori Q9H2B2.

    Family and domain databases

    Gene3Di 2.60.40.150. 2 hits.
    InterProi IPR000008. C2_dom.
    IPR001565. Synaptotagmin.
    IPR028683. SYT4.
    [Graphical view ]
    PANTHERi PTHR10024:SF114. PTHR10024:SF114. 1 hit.
    Pfami PF00168. C2. 2 hits.
    [Graphical view ]
    PRINTSi PR00399. SYNAPTOTAGMN.
    SMARTi SM00239. C2. 2 hits.
    [Graphical view ]
    SUPFAMi SSF49562. SSF49562. 2 hits.
    PROSITEi PS50004. C2. 2 hits.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    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: October 1, 2014
    This is version 121 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