SYPL1_HUMAN
ID SYPL1_HUMAN Reviewed; 259 AA.
AC Q16563; A4D0R2; Q96AR8;
DT 10-OCT-2003, integrated into UniProtKB/Swiss-Prot.
DT 01-NOV-1996, sequence version 1.
DT 03-AUG-2022, entry version 167.
DE RecName: Full=Synaptophysin-like protein 1;
DE AltName: Full=Pantophysin;
GN Name=SYPL1; Synonyms=SYPL;
OS Homo sapiens (Human).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae;
OC Homo.
OX NCBI_TaxID=9606;
RN [1]
RP NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
RC TISSUE=Keratinocyte;
RX PubMed=8034131; DOI=10.1046/j.1432-0436.1994.5630163.x;
RA Leube R.E.;
RT "Expression of the synaptophysin gene family is not restricted to neuronal
RT and neuroendocrine differentiation in rat and human.";
RL Differentiation 56:163-171(1994).
RN [2]
RP NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
RC TISSUE=Testis;
RA Isojima S.;
RL Submitted (JAN-1993) to the EMBL/GenBank/DDBJ databases.
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RX PubMed=12853948; DOI=10.1038/nature01782;
RA Hillier L.W., Fulton R.S., Fulton L.A., Graves T.A., Pepin K.H.,
RA Wagner-McPherson C., Layman D., Maas J., Jaeger S., Walker R., Wylie K.,
RA Sekhon M., Becker M.C., O'Laughlin M.D., Schaller M.E., Fewell G.A.,
RA Delehaunty K.D., Miner T.L., Nash W.E., Cordes M., Du H., Sun H.,
RA Edwards J., Bradshaw-Cordum H., Ali J., Andrews S., Isak A., Vanbrunt A.,
RA Nguyen C., Du F., Lamar B., Courtney L., Kalicki J., Ozersky P.,
RA Bielicki L., Scott K., Holmes A., Harkins R., Harris A., Strong C.M.,
RA Hou S., Tomlinson C., Dauphin-Kohlberg S., Kozlowicz-Reilly A., Leonard S.,
RA Rohlfing T., Rock S.M., Tin-Wollam A.-M., Abbott A., Minx P., Maupin R.,
RA Strowmatt C., Latreille P., Miller N., Johnson D., Murray J.,
RA Woessner J.P., Wendl M.C., Yang S.-P., Schultz B.R., Wallis J.W.,
RA Spieth J., Bieri T.A., Nelson J.O., Berkowicz N., Wohldmann P.E.,
RA Cook L.L., Hickenbotham M.T., Eldred J., Williams D., Bedell J.A.,
RA Mardis E.R., Clifton S.W., Chissoe S.L., Marra M.A., Raymond C., Haugen E.,
RA Gillett W., Zhou Y., James R., Phelps K., Iadanoto S., Bubb K., Simms E.,
RA Levy R., Clendenning J., Kaul R., Kent W.J., Furey T.S., Baertsch R.A.,
RA Brent M.R., Keibler E., Flicek P., Bork P., Suyama M., Bailey J.A.,
RA Portnoy M.E., Torrents D., Chinwalla A.T., Gish W.R., Eddy S.R.,
RA McPherson J.D., Olson M.V., Eichler E.E., Green E.D., Waterston R.H.,
RA Wilson R.K.;
RT "The DNA sequence of human chromosome 7.";
RL Nature 424:157-164(2003).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RX PubMed=12690205; DOI=10.1126/science.1083423;
RA Scherer S.W., Cheung J., MacDonald J.R., Osborne L.R., Nakabayashi K.,
RA Herbrick J.-A., Carson A.R., Parker-Katiraee L., Skaug J., Khaja R.,
RA Zhang J., Hudek A.K., Li M., Haddad M., Duggan G.E., Fernandez B.A.,
RA Kanematsu E., Gentles S., Christopoulos C.C., Choufani S., Kwasnicka D.,
RA Zheng X.H., Lai Z., Nusskern D.R., Zhang Q., Gu Z., Lu F., Zeesman S.,
RA Nowaczyk M.J., Teshima I., Chitayat D., Shuman C., Weksberg R.,
RA Zackai E.H., Grebe T.A., Cox S.R., Kirkpatrick S.J., Rahman N.,
RA Friedman J.M., Heng H.H.Q., Pelicci P.G., Lo-Coco F., Belloni E.,
RA Shaffer L.G., Pober B., Morton C.C., Gusella J.F., Bruns G.A.P., Korf B.R.,
RA Quade B.J., Ligon A.H., Ferguson H., Higgins A.W., Leach N.T.,
RA Herrick S.R., Lemyre E., Farra C.G., Kim H.-G., Summers A.M., Gripp K.W.,
RA Roberts W., Szatmari P., Winsor E.J.T., Grzeschik K.-H., Teebi A.,
RA Minassian B.A., Kere J., Armengol L., Pujana M.A., Estivill X.,
RA Wilson M.D., Koop B.F., Tosi S., Moore G.E., Boright A.P., Zlotorynski E.,
RA Kerem B., Kroisel P.M., Petek E., Oscier D.G., Mould S.J., Doehner H.,
RA Doehner K., Rommens J.M., Vincent J.B., Venter J.C., Li P.W., Mural R.J.,
RA Adams M.D., Tsui L.-C.;
RT "Human chromosome 7: DNA sequence and biology.";
RL Science 300:767-772(2003).
RN [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RA Mural R.J., Istrail S., Sutton G., Florea L., Halpern A.L., Mobarry C.M.,
RA Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J.,
RA Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S.,
RA Turner R., Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H.,
RA Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K.,
RA Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D.,
RA Hunkapiller M.W., Myers E.W., Venter J.C.;
RL Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases.
RN [6]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
RC TISSUE=Brain, and Lung;
RX PubMed=15489334; DOI=10.1101/gr.2596504;
RG The MGC Project Team;
RT "The status, quality, and expansion of the NIH full-length cDNA project:
RT the Mammalian Gene Collection (MGC).";
RL Genome Res. 14:2121-2127(2004).
RN [7]
RP NUCLEOTIDE SEQUENCE [MRNA] OF 15-165 (ISOFORM 1).
RC TISSUE=Blood;
RX PubMed=1730063; DOI=10.1016/0167-4781(92)90495-l;
RA Zhong C.Z., Hayzer D.J., Runge M.S.;
RT "Molecular cloning of a cDNA encoding a novel protein related to the
RT neuronal vesicle protein synaptophysin.";
RL Biochim. Biophys. Acta 1129:235-238(1992).
RN [8]
RP SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
RC TISSUE=Melanoma;
RX PubMed=17081065; DOI=10.1021/pr060363j;
RA Chi A., Valencia J.C., Hu Z.-Z., Watabe H., Yamaguchi H., Mangini N.J.,
RA Huang H., Canfield V.A., Cheng K.C., Yang F., Abe R., Yamagishi S.,
RA Shabanowitz J., Hearing V.J., Wu C., Appella E., Hunt D.F.;
RT "Proteomic and bioinformatic characterization of the biogenesis and
RT function of melanosomes.";
RL J. Proteome Res. 5:3135-3144(2006).
RN [9]
RP GLYCOSYLATION [LARGE SCALE ANALYSIS] AT ASN-71.
RC TISSUE=Liver;
RX PubMed=19159218; DOI=10.1021/pr8008012;
RA Chen R., Jiang X., Sun D., Han G., Wang F., Ye M., Wang L., Zou H.;
RT "Glycoproteomics analysis of human liver tissue by combination of multiple
RT enzyme digestion and hydrazide chemistry.";
RL J. Proteome Res. 8:651-661(2009).
RN [10]
RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RX PubMed=21269460; DOI=10.1186/1752-0509-5-17;
RA Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T.,
RA Bennett K.L., Superti-Furga G., Colinge J.;
RT "Initial characterization of the human central proteome.";
RL BMC Syst. Biol. 5:17-17(2011).
RN [11]
RP CLEAVAGE OF INITIATOR METHIONINE [LARGE SCALE ANALYSIS] (ISOFORM 2), AND
RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RX PubMed=25944712; DOI=10.1002/pmic.201400617;
RA Vaca Jacome A.S., Rabilloud T., Schaeffer-Reiss C., Rompais M., Ayoub D.,
RA Lane L., Bairoch A., Van Dorsselaer A., Carapito C.;
RT "N-terminome analysis of the human mitochondrial proteome.";
RL Proteomics 15:2519-2524(2015).
CC -!- INTERACTION:
CC Q16563; Q92685: ALG3; NbExp=3; IntAct=EBI-2800683, EBI-2848814;
CC Q16563; Q9NP61: ARFGAP3; NbExp=3; IntAct=EBI-2800683, EBI-2875816;
CC Q16563; Q96Q77: CIB3; NbExp=3; IntAct=EBI-2800683, EBI-10292696;
CC Q16563; Q96AL5: PBX3; NbExp=3; IntAct=EBI-2800683, EBI-741171;
CC Q16563; P30405: PPIF; NbExp=3; IntAct=EBI-2800683, EBI-5544229;
CC Q16563; Q8N0V3: RBFA; NbExp=3; IntAct=EBI-2800683, EBI-3232108;
CC Q16563; O00560: SDCBP; NbExp=3; IntAct=EBI-2800683, EBI-727004;
CC Q16563; Q9BW92: TARS2; NbExp=3; IntAct=EBI-2800683, EBI-1045099;
CC Q16563; Q53QW1: TEX44; NbExp=3; IntAct=EBI-2800683, EBI-10278496;
CC -!- SUBCELLULAR LOCATION: Cytoplasmic vesicle membrane {ECO:0000250};
CC Multi-pass membrane protein {ECO:0000250}. Melanosome
CC {ECO:0000269|PubMed:17081065}. Note=Cytoplasmic transport vesicles (By
CC similarity). Identified by mass spectrometry in melanosome fractions
CC from stage I to stage IV. {ECO:0000250}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q16563-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q16563-2; Sequence=VSP_008557;
CC -!- SIMILARITY: Belongs to the synaptophysin/synaptobrevin family.
CC {ECO:0000305}.
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DR EMBL; S72481; AAB31344.1; -; mRNA.
DR EMBL; X68194; CAA48276.1; -; mRNA.
DR EMBL; AC005095; AAD50513.1; -; Genomic_DNA.
DR EMBL; CH236947; EAL24402.1; -; Genomic_DNA.
DR EMBL; CH471070; EAW83380.1; -; Genomic_DNA.
DR EMBL; BC016835; AAH16835.3; -; mRNA.
DR EMBL; BC020938; AAH20938.1; -; mRNA.
DR EMBL; BC061887; AAH61887.1; -; mRNA.
DR EMBL; X61382; -; NOT_ANNOTATED_CDS; mRNA.
DR CCDS; CCDS47685.1; -. [Q16563-2]
DR CCDS; CCDS5736.1; -. [Q16563-1]
DR PIR; I53171; I53171.
DR PIR; S20316; S20316.
DR RefSeq; NP_006745.1; NM_006754.3. [Q16563-1]
DR RefSeq; NP_874384.1; NM_182715.2. [Q16563-2]
DR AlphaFoldDB; Q16563; -.
DR BioGRID; 112722; 33.
DR IntAct; Q16563; 21.
DR STRING; 9606.ENSP00000011473; -.
DR GlyConnect; 1783; 15 N-Linked glycans (1 site).
DR GlyGen; Q16563; 4 sites, 17 N-linked glycans (1 site), 1 O-linked glycan (1 site).
DR iPTMnet; Q16563; -.
DR PhosphoSitePlus; Q16563; -.
DR SwissPalm; Q16563; -.
DR BioMuta; SYPL1; -.
DR DMDM; 48474786; -.
DR EPD; Q16563; -.
DR jPOST; Q16563; -.
DR MassIVE; Q16563; -.
DR MaxQB; Q16563; -.
DR PaxDb; Q16563; -.
DR PeptideAtlas; Q16563; -.
DR PRIDE; Q16563; -.
DR ProteomicsDB; 60919; -. [Q16563-1]
DR ProteomicsDB; 60920; -. [Q16563-2]
DR Antibodypedia; 2819; 159 antibodies from 25 providers.
DR DNASU; 6856; -.
DR Ensembl; ENST00000011473.6; ENSP00000011473.2; ENSG00000008282.9. [Q16563-1]
DR Ensembl; ENST00000455385.7; ENSP00000388336.2; ENSG00000008282.9. [Q16563-2]
DR GeneID; 6856; -.
DR KEGG; hsa:6856; -.
DR MANE-Select; ENST00000455385.7; ENSP00000388336.2; NM_182715.4; NP_874384.1. [Q16563-2]
DR UCSC; uc003vdo.5; human. [Q16563-1]
DR CTD; 6856; -.
DR DisGeNET; 6856; -.
DR GeneCards; SYPL1; -.
DR HGNC; HGNC:11507; SYPL1.
DR HPA; ENSG00000008282; Low tissue specificity.
DR neXtProt; NX_Q16563; -.
DR OpenTargets; ENSG00000008282; -.
DR PharmGKB; PA36289; -.
DR VEuPathDB; HostDB:ENSG00000008282; -.
DR eggNOG; ENOG502RY2D; Eukaryota.
DR GeneTree; ENSGT01030000234637; -.
DR HOGENOM; CLU_064642_1_0_1; -.
DR InParanoid; Q16563; -.
DR OMA; YNVPDCK; -.
DR PhylomeDB; Q16563; -.
DR TreeFam; TF315804; -.
DR PathwayCommons; Q16563; -.
DR SignaLink; Q16563; -.
DR BioGRID-ORCS; 6856; 11 hits in 1079 CRISPR screens.
DR ChiTaRS; SYPL1; human.
DR GeneWiki; SYPL1; -.
DR GenomeRNAi; 6856; -.
DR Pharos; Q16563; Tbio.
DR PRO; PR:Q16563; -.
DR Proteomes; UP000005640; Chromosome 7.
DR RNAct; Q16563; protein.
DR Bgee; ENSG00000008282; Expressed in epithelium of nasopharynx and 202 other tissues.
DR ExpressionAtlas; Q16563; baseline and differential.
DR Genevisible; Q16563; HS.
DR GO; GO:0070062; C:extracellular exosome; HDA:UniProtKB.
DR GO; GO:0016021; C:integral component of membrane; TAS:ProtInc.
DR GO; GO:0005887; C:integral component of plasma membrane; TAS:ProtInc.
DR GO; GO:0030285; C:integral component of synaptic vesicle membrane; IEA:Ensembl.
DR GO; GO:0042470; C:melanosome; IEA:UniProtKB-SubCell.
DR GO; GO:0030141; C:secretory granule; IEA:Ensembl.
DR GO; GO:0030672; C:synaptic vesicle membrane; IBA:GO_Central.
DR GO; GO:0007268; P:chemical synaptic transmission; TAS:ProtInc.
DR InterPro; IPR008253; Marvel.
DR InterPro; IPR001285; Synaptophysin/porin.
DR PANTHER; PTHR10306; PTHR10306; 1.
DR Pfam; PF01284; MARVEL; 1.
DR PRINTS; PR00220; SYNAPTOPHYSN.
DR PROSITE; PS51225; MARVEL; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; Cytoplasmic vesicle; Glycoprotein; Membrane;
KW Reference proteome; Transmembrane; Transmembrane helix.
FT CHAIN 1..259
FT /note="Synaptophysin-like protein 1"
FT /id="PRO_0000179164"
FT TOPO_DOM 1..33
FT /note="Cytoplasmic"
FT /evidence="ECO:0000255"
FT TRANSMEM 34..54
FT /note="Helical"
FT /evidence="ECO:0000255"
FT TOPO_DOM 55..116
FT /note="Vesicular"
FT /evidence="ECO:0000255"
FT TRANSMEM 117..137
FT /note="Helical"
FT /evidence="ECO:0000255"
FT TOPO_DOM 138..150
FT /note="Cytoplasmic"
FT /evidence="ECO:0000255"
FT TRANSMEM 151..171
FT /note="Helical"
FT /evidence="ECO:0000255"
FT TOPO_DOM 172..212
FT /note="Vesicular"
FT /evidence="ECO:0000255"
FT TRANSMEM 213..233
FT /note="Helical"
FT /evidence="ECO:0000255"
FT TOPO_DOM 234..259
FT /note="Cytoplasmic"
FT /evidence="ECO:0000255"
FT DOMAIN 28..237
FT /note="MARVEL"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00581"
FT CARBOHYD 71
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000269|PubMed:19159218"
FT CARBOHYD 212
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT VAR_SEQ 1..18
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:15489334"
FT /id="VSP_008557"
FT CONFLICT 15..19
FT /note="LGQRM -> HLQGR (in Ref. 7; X61382)"
FT /evidence="ECO:0000305"
FT CONFLICT 163..165
FT /note="LWL -> CGW (in Ref. 7)"
FT /evidence="ECO:0000305"
FT INIT_MET Q16563-2:1
FT /note="Removed"
FT /evidence="ECO:0007744|PubMed:25944712"
SQ SEQUENCE 259 AA; 28565 MW; 20D553779AA82085 CRC64;
MAPNIYLVRQ RISRLGQRMS GFQINLNPLK EPLGFIKVLE WIASIFAFAT CGGFKGQTEI
QVNCPPAVTE NKTVTATFGY PFRLNEASFQ PPPGVNICDV NWKDYVLIGD YSSSAQFYVT
FAVFVFLYCI AALLLYVGYT SLYLDSRKLP MIDFVVTLVA TFLWLVSTSA WAKALTDIKI
ATGHNIIDEL PPCKKKAVLC YFGSVTSMGS LNVSVIFGFL NMILWGGNAW FVYKETSLHS
PSNTSAPHSQ GGIPPPTGI
