SPE39_DANRE
ID SPE39_DANRE Reviewed; 483 AA.
AC Q5TYV4; Q4QRG4; Q6TLG0;
DT 13-JUL-2010, integrated into UniProtKB/Swiss-Prot.
DT 07-DEC-2004, sequence version 1.
DT 03-AUG-2022, entry version 89.
DE RecName: Full=Spermatogenesis-defective protein 39 homolog;
DE Short=hSPE-39;
DE AltName: Full=VPS33B-interacting protein in apical-basolateral polarity regulator;
DE AltName: Full=VPS33B-interacting protein in polarity and apical restriction;
GN Name=vipas39; Synonyms=spe39, vipar; ORFNames=si:ch211-20b12.1;
OS Danio rerio (Zebrafish) (Brachydanio rerio).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes;
OC Danionidae; Danioninae; Danio.
OX NCBI_TaxID=7955;
RN [1] {ECO:0000312|EMBL:AAQ94572.1}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC TISSUE=Kidney marrow {ECO:0000312|EMBL:AAQ94572.1};
RX PubMed=15520368; DOI=10.1073/pnas.0407241101;
RA Song H.-D., Sun X.-J., Deng M., Zhang G.-W., Zhou Y., Wu X.-Y., Sheng Y.,
RA Chen Y., Ruan Z., Jiang C.-L., Fan H.-Y., Zon L.I., Kanki J.P., Liu T.X.,
RA Look A.T., Chen Z.;
RT "Hematopoietic gene expression profile in zebrafish kidney marrow.";
RL Proc. Natl. Acad. Sci. U.S.A. 101:16240-16245(2004).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=Tuebingen;
RX PubMed=23594743; DOI=10.1038/nature12111;
RA Howe K., Clark M.D., Torroja C.F., Torrance J., Berthelot C., Muffato M.,
RA Collins J.E., Humphray S., McLaren K., Matthews L., McLaren S., Sealy I.,
RA Caccamo M., Churcher C., Scott C., Barrett J.C., Koch R., Rauch G.J.,
RA White S., Chow W., Kilian B., Quintais L.T., Guerra-Assuncao J.A., Zhou Y.,
RA Gu Y., Yen J., Vogel J.H., Eyre T., Redmond S., Banerjee R., Chi J., Fu B.,
RA Langley E., Maguire S.F., Laird G.K., Lloyd D., Kenyon E., Donaldson S.,
RA Sehra H., Almeida-King J., Loveland J., Trevanion S., Jones M., Quail M.,
RA Willey D., Hunt A., Burton J., Sims S., McLay K., Plumb B., Davis J.,
RA Clee C., Oliver K., Clark R., Riddle C., Elliot D., Threadgold G.,
RA Harden G., Ware D., Begum S., Mortimore B., Kerry G., Heath P.,
RA Phillimore B., Tracey A., Corby N., Dunn M., Johnson C., Wood J., Clark S.,
RA Pelan S., Griffiths G., Smith M., Glithero R., Howden P., Barker N.,
RA Lloyd C., Stevens C., Harley J., Holt K., Panagiotidis G., Lovell J.,
RA Beasley H., Henderson C., Gordon D., Auger K., Wright D., Collins J.,
RA Raisen C., Dyer L., Leung K., Robertson L., Ambridge K., Leongamornlert D.,
RA McGuire S., Gilderthorp R., Griffiths C., Manthravadi D., Nichol S.,
RA Barker G., Whitehead S., Kay M., Brown J., Murnane C., Gray E.,
RA Humphries M., Sycamore N., Barker D., Saunders D., Wallis J., Babbage A.,
RA Hammond S., Mashreghi-Mohammadi M., Barr L., Martin S., Wray P.,
RA Ellington A., Matthews N., Ellwood M., Woodmansey R., Clark G., Cooper J.,
RA Tromans A., Grafham D., Skuce C., Pandian R., Andrews R., Harrison E.,
RA Kimberley A., Garnett J., Fosker N., Hall R., Garner P., Kelly D., Bird C.,
RA Palmer S., Gehring I., Berger A., Dooley C.M., Ersan-Urun Z., Eser C.,
RA Geiger H., Geisler M., Karotki L., Kirn A., Konantz J., Konantz M.,
RA Oberlander M., Rudolph-Geiger S., Teucke M., Lanz C., Raddatz G.,
RA Osoegawa K., Zhu B., Rapp A., Widaa S., Langford C., Yang F.,
RA Schuster S.C., Carter N.P., Harrow J., Ning Z., Herrero J., Searle S.M.,
RA Enright A., Geisler R., Plasterk R.H., Lee C., Westerfield M.,
RA de Jong P.J., Zon L.I., Postlethwait J.H., Nusslein-Volhard C.,
RA Hubbard T.J., Roest Crollius H., Rogers J., Stemple D.L.;
RT "The zebrafish reference genome sequence and its relationship to the human
RT genome.";
RL Nature 496:498-503(2013).
RN [3] {ECO:0000312|EMBL:CAH68911.1}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC TISSUE=Olfactory epithelium {ECO:0000312|EMBL:AAH97010.1};
RG NIH - Zebrafish Gene Collection (ZGC) project;
RL Submitted (JUN-2005) to the EMBL/GenBank/DDBJ databases.
RN [4] {ECO:0000305}
RP FUNCTION, AND TISSUE SPECIFICITY.
RX PubMed=20190753; DOI=10.1038/ng.538;
RA Cullinane A.R., Straatman-Iwanowska A., Zaucker A., Wakabayashi Y.,
RA Bruce C.K., Luo G., Rahman F., Gurakan F., Utine E., Ozkan T.B.,
RA Denecke J., Vukovic J., Di Rocco M., Mandel H., Cangul H., Matthews R.P.,
RA Thomas S.G., Rappoport J.Z., Arias I.M., Wolburg H., Knisely A.S.,
RA Kelly D.A., Muller F., Maher E.R., Gissen P.;
RT "Mutations in VIPAR cause an arthrogryposis, renal dysfunction and
RT cholestasis syndrome phenotype with defects in epithelial polarization.";
RL Nat. Genet. 42:303-312(2010).
CC -!- FUNCTION: Proposed to be involved in endosomal maturation implicating
CC in part vps33b. In epithelial cells, the vps33b:vipas39 complex may
CC play a role in the apical rab11a-dependent recycling pathway and in the
CC maintenance of the apical-basolateral polarity. May play a role in
CC lysosomal trafficking, probably via association with the core HOPS
CC complex in a discrete population of endosomes; the functions seems to
CC be independent of vps33b. May play a role in vesicular trafficking
CC during spermatogenesis (By similarity). May be involved in direct or
CC indirect transcriptional regulation of E-cadherin.
CC {ECO:0000250|UniProtKB:Q9H9C1, ECO:0000269|PubMed:20190753}.
CC -!- SUBUNIT: Interacts with vps33b. {ECO:0000250|UniProtKB:Q9H9C1}.
CC -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000250}. Cytoplasmic vesicle
CC {ECO:0000250}. Early endosome {ECO:0000250|UniProtKB:Q9H9C1}. Recycling
CC endosome {ECO:0000250|UniProtKB:Q9H9C1}. Late endosome
CC {ECO:0000250|UniProtKB:Q9H9C1}.
CC -!- TISSUE SPECIFICITY: High levels detected in liver and small intestine
CC of larvae at 5 days post-fertilization. {ECO:0000269|PubMed:20190753}.
CC -!- SIMILARITY: Belongs to the SPE39 family. {ECO:0000305}.
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DR EMBL; AY394945; AAQ94572.1; -; mRNA.
DR EMBL; BX679672; CAH68911.1; -; Genomic_DNA.
DR EMBL; BX510992; CAH68911.1; JOINED; Genomic_DNA.
DR EMBL; BX510992; CAH69151.1; -; Genomic_DNA.
DR EMBL; BX679672; CAH69151.1; JOINED; Genomic_DNA.
DR EMBL; BC097010; AAH97010.1; -; mRNA.
DR RefSeq; NP_001001836.1; NM_001001836.1.
DR AlphaFoldDB; Q5TYV4; -.
DR SMR; Q5TYV4; -.
DR STRING; 7955.ENSDARP00000041450; -.
DR PaxDb; Q5TYV4; -.
DR Ensembl; ENSDART00000191333; ENSDARP00000157217; ENSDARG00000103690.
DR GeneID; 415096; -.
DR KEGG; dre:415096; -.
DR CTD; 63894; -.
DR ZFIN; ZDB-GENE-040520-1; vipas39.
DR eggNOG; KOG4677; Eukaryota.
DR GeneTree; ENSGT00390000013955; -.
DR InParanoid; Q5TYV4; -.
DR OrthoDB; 812306at2759; -.
DR PhylomeDB; Q5TYV4; -.
DR TreeFam; TF319640; -.
DR PRO; PR:Q5TYV4; -.
DR Proteomes; UP000000437; Genome assembly.
DR Proteomes; UP000814640; Chromosome 20.
DR Bgee; ENSDARG00000103690; Expressed in brain and 28 other tissues.
DR ExpressionAtlas; Q5TYV4; baseline.
DR GO; GO:0005737; C:cytoplasm; ISS:UniProtKB.
DR GO; GO:0005769; C:early endosome; IEA:UniProtKB-SubCell.
DR GO; GO:0005770; C:late endosome; IEA:UniProtKB-SubCell.
DR GO; GO:0055037; C:recycling endosome; IEA:UniProtKB-SubCell.
DR GO; GO:0030154; P:cell differentiation; IEA:UniProtKB-KW.
DR GO; GO:0061008; P:hepaticobiliary system development; IMP:ZFIN.
DR GO; GO:0006886; P:intracellular protein transport; IBA:GO_Central.
DR GO; GO:0007283; P:spermatogenesis; IEA:UniProtKB-KW.
DR GO; GO:0007034; P:vacuolar transport; IBA:GO_Central.
DR InterPro; IPR040057; Spe-39.
DR InterPro; IPR006925; Vps16_C.
DR PANTHER; PTHR13364; PTHR13364; 1.
DR Pfam; PF04840; Vps16_C; 1.
PE 2: Evidence at transcript level;
KW Cytoplasm; Cytoplasmic vesicle; Differentiation; Endosome;
KW Protein transport; Reference proteome; Spermatogenesis; Transcription;
KW Transcription regulation; Transport.
FT CHAIN 1..483
FT /note="Spermatogenesis-defective protein 39 homolog"
FT /id="PRO_0000395314"
FT CONFLICT 215
FT /note="E -> D (in Ref. 1; AAQ94572 and 3; AAH97010)"
FT /evidence="ECO:0000305"
FT CONFLICT 442
FT /note="N -> S (in Ref. 3; AAH97010)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 483 AA; 56073 MW; B6EC2FA3031A21A8 CRC64;
MTRAKPEDDE YWNSSKFKAF TFDDEDDEFS RLKESKRAVN SILVDDDDDE DDVEKVSWSG
EPVGSISWSV RETASSIRSG SEQNFPKIDT APSLSKQGSG YSLSSLFKAK SKPTAFQSFS
ESFSETSART YAPELRKPKS DGKDFVSDLS PEETIRRMQK GRAFSMEKFR SLQDKLLLLD
EAVSVYDGNV ITAVLIYLKK SLSKEILFRE LMPREVALRH YIHYLKEMGE QKLLVELLKA
LGRTEDMALM QYKEHLNIKD EGRRRDFLKS CLSLPFSQDD STHVQDHYTL LERQIIIEAS
DKKADTDIFK KFPRKASILN MPIITTLYYS CFYHYGEPEG TFSSPSNIRK TFRISEKQYI
TTALGARAKL KSWFDVDSLF NTKNWLGYTK KRSPIAFHRV VDILQKNSAP VQVLQEYVNL
IDDPELKLSV ALKYKCHDII INTYRDLKDR QQLIVYREKL ERDSPEYRKI QELLNNGQIR
WKN
