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Protein

Synaptobrevin homolog YKT6

Gene

YKT6

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Vesicular soluble NSF attachment protein receptor (v-SNARE) mediating vesicle docking and fusion to a specific acceptor cellular compartment. Functions in endoplasmic reticulum to Golgi transport; as part of a SNARE complex composed of GOSR1, GOSR2 and STX5. Functions in early/recycling endosome to TGN transport; as part of a SNARE complex composed of BET1L, GOSR1 and STX5. Has a S-palmitoyl transferase activity.2 Publications

GO - Molecular functioni

  1. protein-cysteine S-palmitoyltransferase activity Source: HGNC
  2. SNAP receptor activity Source: HGNC
  3. SNARE binding Source: GO_Central

GO - Biological processi

  1. ER to Golgi vesicle-mediated transport Source: HGNC
  2. metabolic process Source: GOC
  3. protein transport Source: UniProtKB-KW
  4. retrograde transport, endosome to Golgi Source: HGNC
  5. vesicle docking involved in exocytosis Source: HGNC
  6. vesicle fusion Source: GO_Central
  7. vesicle targeting Source: HGNC
Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

ER-Golgi transport, Protein transport, Transport

Names & Taxonomyi

Protein namesi
Recommended name:
Synaptobrevin homolog YKT6 (EC:2.3.1.-)
Gene namesi
Name:YKT6
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Chromosome 7

Organism-specific databases

HGNCiHGNC:16959. YKT6.

Subcellular locationi

Cytoplasmcytosol. Cytoplasmic vesicle membrane; Lipid-anchor; Cytoplasmic side. Golgi apparatus membrane; Lipid-anchor; Cytoplasmic side
Note: Probably cycles through vesicles between Golgi and endosomes.

GO - Cellular componenti

  1. cytoplasm Source: HPA
  2. cytoplasmic vesicle membrane Source: UniProtKB-SubCell
  3. cytosol Source: UniProtKB-SubCell
  4. endoplasmic reticulum Source: HGNC
  5. endosome Source: HGNC
  6. extracellular vesicular exosome Source: UniProtKB
  7. Golgi apparatus Source: HGNC
  8. Golgi membrane Source: UniProtKB-SubCell
  9. integral component of plasma membrane Source: HGNC
  10. mitochondrion Source: HPA
  11. SNARE complex Source: HGNC
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Cytoplasmic vesicle, Golgi apparatus, Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi42 – 421F → E: Increases palmitoylation. Targeted to Golgi membranes. Targeted to Golgi and cytosol; when associated with S-194. Targeted to cytosol; when associated with S-195. 2 Publications
Mutagenesisi194 – 1941C → S: Decreases palmitoylation by 55%. Prevents palmitoylation; when associated with S-195. Targeted to Golgi and cytosol; when associated with E-42. 2 Publications
Mutagenesisi195 – 1951C → S: Prevents farnesylation. Targeted to cytosol; when associated with E-42. Decreases palmitoylation by 13%. Prevents palmitoylation; when associated with S-194. 2 Publications

Organism-specific databases

PharmGKBiPA145007308.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 195195Synaptobrevin homolog YKT6PRO_0000280709Add
BLAST
Propeptidei196 – 1983Removed in mature formCuratedPRO_0000396661

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Lipidationi194 – 1941S-palmitoyl cysteine1 Publication
Modified residuei195 – 1951Cysteine methyl esterCurated
Lipidationi195 – 1951S-farnesyl cysteine1 Publication

Post-translational modificationi

Palmitoylated; catalyzes its own palmitoylation. Palmitoylation is required for Golgi targeting.2 Publications
Farnesylation is required for Golgi targeting.

Keywords - PTMi

Lipoprotein, Methylation, Palmitate, Prenylation

Proteomic databases

MaxQBiO15498.
PaxDbiO15498.
PRIDEiO15498.

PTM databases

PhosphoSiteiO15498.

Expressioni

Gene expression databases

BgeeiO15498.
CleanExiHS_YKT6.
ExpressionAtlasiO15498. baseline and differential.
GenevestigatoriO15498.

Organism-specific databases

HPAiHPA030817.
HPA030818.

Interactioni

Subunit structurei

Identified in 2 different SNARE complexes; the first one composed of GOSR1, GOSR2 and STX5 and the second one composed of BET1L, GOSR1 and STX5.By similarity

Protein-protein interaction databases

BioGridi115895. 18 interactions.
IntActiO15498. 1 interaction.
MINTiMINT-2999058.
STRINGi9606.ENSP00000223369.

Structurei

3D structure databases

ProteinModelPortaliO15498.
SMRiO15498. Positions 1-192.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini8 – 126119LonginPROSITE-ProRule annotationAdd
BLAST
Domaini138 – 19861v-SNARE coiled-coil homologyPROSITE-ProRule annotationAdd
BLAST

Domaini

The longin domain regulates palmitoylation and membrane targeting.

Sequence similaritiesi

Belongs to the synaptobrevin family.Curated
Contains 1 longin domain.PROSITE-ProRule annotation
Contains 1 v-SNARE coiled-coil homology domain.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiCOG5143.
GeneTreeiENSGT00390000015164.
HOGENOMiHOG000189970.
HOVERGENiHBG088939.
InParanoidiO15498.
KOiK08516.
OMAiNSCCEIM.
PhylomeDBiO15498.
TreeFamiTF105606.

Family and domain databases

Gene3Di3.30.450.50. 1 hit.
InterProiIPR011012. Longin-like_dom.
IPR010908. Longin_dom.
IPR001388. Synaptobrevin.
[Graphical view]
PfamiPF13774. Longin. 1 hit.
PF00957. Synaptobrevin. 1 hit.
[Graphical view]
SUPFAMiSSF64356. SSF64356. 1 hit.
PROSITEiPS50859. LONGIN. 1 hit.
PS50892. V_SNARE. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: O15498-1) [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
MKLYSLSVLY KGEAKVVLLK AAYDVSSFSF FQRSSVQEFM TFTSQLIVER
60 70 80 90 100
SSKGTRASVK EQDYLCHVYV RNDSLAGVVI ADNEYPSRVA FTLLEKVLDE
110 120 130 140 150
FSKQVDRIDW PVGSPATIHY PALDGHLSRY QNPREADPMT KVQAELDETK
160 170 180 190
IILHNTMESL LERGEKLDDL VSKSEVLGTQ SKAFYKTARK QNSCCAIM
Length:198
Mass (Da):22,418
Last modified:December 31, 1997 - v1
Checksum:i2AB0C12832D1B943
GO
Isoform 2 (identifier: O15498-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     154-187: Missing.

Note: No experimental confirmation available.

Show »
Length:164
Mass (Da):18,580
Checksum:i660854BBA5AC6C27
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti63 – 631D → N in CAG46805 (Ref. 4) Curated
Sequence conflicti138 – 1381P → L in BAD97208 (Ref. 5) Curated
Sequence conflicti198 – 1981M → I in CAG33270 (Ref. 4) Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei154 – 18734Missing in isoform 2. 1 PublicationVSP_056071Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U95735 mRNA. Translation: AAB81131.1.
BT007078 mRNA. Translation: AAP35741.1.
AK299158 mRNA. Translation: BAG61206.1.
CR456989 mRNA. Translation: CAG33270.1.
CR542008 mRNA. Translation: CAG46805.1.
AK223488 mRNA. Translation: BAD97208.1.
AC006454 Genomic DNA. No translation available.
BC007319 mRNA. Translation: AAH07319.1.
CCDSiCCDS5482.1. [O15498-1]
RefSeqiNP_006546.1. NM_006555.3. [O15498-1]
UniGeneiHs.520794.

Genome annotation databases

EnsembliENST00000223369; ENSP00000223369; ENSG00000106636. [O15498-1]
ENST00000496112; ENSP00000420805; ENSG00000106636. [O15498-2]
GeneIDi10652.
KEGGihsa:10652.
UCSCiuc003tkm.3. human. [O15498-1]
uc011kbv.2. human.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U95735 mRNA. Translation: AAB81131.1.
BT007078 mRNA. Translation: AAP35741.1.
AK299158 mRNA. Translation: BAG61206.1.
CR456989 mRNA. Translation: CAG33270.1.
CR542008 mRNA. Translation: CAG46805.1.
AK223488 mRNA. Translation: BAD97208.1.
AC006454 Genomic DNA. No translation available.
BC007319 mRNA. Translation: AAH07319.1.
CCDSiCCDS5482.1. [O15498-1]
RefSeqiNP_006546.1. NM_006555.3. [O15498-1]
UniGeneiHs.520794.

3D structure databases

ProteinModelPortaliO15498.
SMRiO15498. Positions 1-192.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi115895. 18 interactions.
IntActiO15498. 1 interaction.
MINTiMINT-2999058.
STRINGi9606.ENSP00000223369.

PTM databases

PhosphoSiteiO15498.

Proteomic databases

MaxQBiO15498.
PaxDbiO15498.
PRIDEiO15498.

Protocols and materials databases

DNASUi10652.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000223369; ENSP00000223369; ENSG00000106636. [O15498-1]
ENST00000496112; ENSP00000420805; ENSG00000106636. [O15498-2]
GeneIDi10652.
KEGGihsa:10652.
UCSCiuc003tkm.3. human. [O15498-1]
uc011kbv.2. human.

Organism-specific databases

CTDi10652.
GeneCardsiGC07P044240.
HGNCiHGNC:16959. YKT6.
HPAiHPA030817.
HPA030818.
MIMi606209. gene.
neXtProtiNX_O15498.
PharmGKBiPA145007308.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiCOG5143.
GeneTreeiENSGT00390000015164.
HOGENOMiHOG000189970.
HOVERGENiHBG088939.
InParanoidiO15498.
KOiK08516.
OMAiNSCCEIM.
PhylomeDBiO15498.
TreeFamiTF105606.

Miscellaneous databases

ChiTaRSiYKT6. human.
GeneWikiiYKT6.
GenomeRNAii10652.
NextBioi35474329.
PROiO15498.
SOURCEiSearch...

Gene expression databases

BgeeiO15498.
CleanExiHS_YKT6.
ExpressionAtlasiO15498. baseline and differential.
GenevestigatoriO15498.

Family and domain databases

Gene3Di3.30.450.50. 1 hit.
InterProiIPR011012. Longin-like_dom.
IPR010908. Longin_dom.
IPR001388. Synaptobrevin.
[Graphical view]
PfamiPF13774. Longin. 1 hit.
PF00957. Synaptobrevin. 1 hit.
[Graphical view]
SUPFAMiSSF64356. SSF64356. 1 hit.
PROSITEiPS50859. LONGIN. 1 hit.
PS50892. V_SNARE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Ykt6p, a prenylated SNARE essential for endoplasmic reticulum-Golgi transport."
    McNew J.A., Soegaard M., Lampen N.M., Machida S., Ye R.R., Lacomis L., Tempst P., Rothman J.E., Soellner T.H.
    J. Biol. Chem. 272:17776-17783(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), FUNCTION.
    Tissue: Pancreas.
  2. "Cloning of human full-length CDSs in BD Creator(TM) system donor vector."
    Kalnine N., Chen X., Rolfs A., Halleck A., Hines L., Eisenstein S., Koundinya M., Raphael J., Moreira D., Kelley T., LaBaer J., Lin Y., Phelan M., Farmer A.
    Submitted (APR-2003) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
  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(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
  4. "Cloning of human full open reading frames in Gateway(TM) system entry vector (pDONR201)."
    Ebert L., Schick M., Neubert P., Schatten R., Henze S., Korn B.
    Submitted (MAY-2004) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
  5. Totoki Y., Toyoda A., Takeda T., Sakaki Y., Tanaka A., Yokoyama S.
    Submitted (MAR-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Hepatoma.
  6. "The DNA sequence of human chromosome 7."
    Hillier L.W., Fulton R.S., Fulton L.A., Graves T.A., Pepin K.H., Wagner-McPherson C., Layman D., Maas J., Jaeger S., Walker R., Wylie K., Sekhon M., Becker M.C., O'Laughlin M.D., Schaller M.E., Fewell G.A., Delehaunty K.D., Miner T.L.
    , Nash W.E., Cordes M., Du H., Sun H., Edwards J., Bradshaw-Cordum H., Ali J., Andrews S., Isak A., Vanbrunt A., Nguyen C., Du F., Lamar B., Courtney L., Kalicki J., Ozersky P., Bielicki L., Scott K., Holmes A., Harkins R., Harris A., Strong C.M., Hou S., Tomlinson C., Dauphin-Kohlberg S., Kozlowicz-Reilly A., Leonard S., Rohlfing T., Rock S.M., Tin-Wollam A.-M., Abbott A., Minx P., Maupin R., Strowmatt C., Latreille P., Miller N., Johnson D., Murray J., Woessner J.P., Wendl M.C., Yang S.-P., Schultz B.R., Wallis J.W., Spieth J., Bieri T.A., Nelson J.O., Berkowicz N., Wohldmann P.E., Cook L.L., Hickenbotham M.T., Eldred J., Williams D., Bedell J.A., Mardis E.R., Clifton S.W., Chissoe S.L., Marra M.A., Raymond C., Haugen E., Gillett W., Zhou Y., James R., Phelps K., Iadanoto S., Bubb K., Simms E., Levy R., Clendenning J., Kaul R., Kent W.J., Furey T.S., Baertsch R.A., Brent M.R., Keibler E., Flicek P., Bork P., Suyama M., Bailey J.A., Portnoy M.E., Torrents D., Chinwalla A.T., Gish W.R., Eddy S.R., McPherson J.D., Olson M.V., Eichler E.E., Green E.D., Waterston R.H., Wilson R.K.
    Nature 424:157-164(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  7. "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(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Lymph.
  8. "The human SNARE protein Ykt6 mediates its own palmitoylation at C-terminal cysteine residues."
    Veit M.
    Biochem. J. 384:233-237(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: CATALYTIC ACTIVITY, MUTAGENESIS OF PHE-42; CYS-194 AND CYS-195, PALMITOYLATION AT CYS-194.
  9. "Countercurrent distribution of two distinct SNARE complexes mediating transport within the Golgi stack."
    Volchuk A., Ravazzola M., Perrelet A., Eng W.S., Di Liberto M., Varlamov O., Fukasawa M., Engel T., Sollner T.H., Rothman J.E., Orci L.
    Mol. Biol. Cell 15:1506-1518(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION.
  10. "Participation of the syntaxin 5/Ykt6/GS28/GS15 SNARE complex in transport from the early/recycling endosome to the trans-Golgi network."
    Tai G., Lu L., Wang T.L., Tang B.L., Goud B., Johannes L., Hong W.
    Mol. Biol. Cell 15:4011-4022(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION.
  11. "Localization and activity of the SNARE Ykt6 determined by its regulatory domain and palmitoylation."
    Fukasawa M., Varlamov O., Eng W.S., Soellner T.H., Rothman J.E.
    Proc. Natl. Acad. Sci. U.S.A. 101:4815-4820(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION, MUTAGENESIS OF PHE-42; CYS-194 AND CYS-195, ISOPRENYLATION AT CYS-195, PALMITOYLATION.
  12. "Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis."
    Olsen J.V., Vermeulen M., Santamaria A., Kumar C., Miller M.L., Jensen L.J., Gnad F., Cox J., Jensen T.S., Nigg E.A., Brunak S., Mann M.
    Sci. Signal. 3:RA3-RA3(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  13. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiYKT6_HUMAN
AccessioniPrimary (citable) accession number: O15498
Secondary accession number(s): B4DR94
, Q53F01, Q6FGU9, Q6IB15
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 19, 2007
Last sequence update: December 31, 1997
Last modified: February 3, 2015
This is version 116 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

Complete proteome, Reference proteome

Documents

  1. Human chromosome 7
    Human chromosome 7: 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.