YBEY_HUMAN
ID YBEY_HUMAN Reviewed; 167 AA.
AC P58557; B7WPA9; B7WPF7; D3DSN2;
DT 23-JAN-2002, integrated into UniProtKB/Swiss-Prot.
DT 10-MAY-2004, sequence version 2.
DT 03-AUG-2022, entry version 145.
DE RecName: Full=Endoribonuclease YbeY {ECO:0000305};
DE EC=3.1.-.- {ECO:0000269|PubMed:28153719};
GN Name=YBEY; Synonyms=C21orf57;
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] (ISOFORMS A; B; C AND D).
RX PubMed=11707072; DOI=10.1006/geno.2001.6640;
RA Reymond A., Friedli M., Neergaard Henrichsen C., Chapot F., Deutsch S.,
RA Ucla C., Rossier C., Lyle R., Guipponi M., Antonarakis S.E.;
RT "From PREDs and open reading frames to cDNA isolation: revisiting the human
RT chromosome 21 transcription map.";
RL Genomics 78:46-54(2001).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RX PubMed=10830953; DOI=10.1038/35012518;
RA Hattori M., Fujiyama A., Taylor T.D., Watanabe H., Yada T., Park H.-S.,
RA Toyoda A., Ishii K., Totoki Y., Choi D.-K., Groner Y., Soeda E., Ohki M.,
RA Takagi T., Sakaki Y., Taudien S., Blechschmidt K., Polley A., Menzel U.,
RA Delabar J., Kumpf K., Lehmann R., Patterson D., Reichwald K., Rump A.,
RA Schillhabel M., Schudy A., Zimmermann W., Rosenthal A., Kudoh J.,
RA Shibuya K., Kawasaki K., Asakawa S., Shintani A., Sasaki T., Nagamine K.,
RA Mitsuyama S., Antonarakis S.E., Minoshima S., Shimizu N., Nordsiek G.,
RA Hornischer K., Brandt P., Scharfe M., Schoen O., Desario A., Reichelt J.,
RA Kauer G., Bloecker H., Ramser J., Beck A., Klages S., Hennig S.,
RA Riesselmann L., Dagand E., Wehrmeyer S., Borzym K., Gardiner K.,
RA Nizetic D., Francis F., Lehrach H., Reinhardt R., Yaspo M.-L.;
RT "The DNA sequence of human chromosome 21.";
RL Nature 405:311-319(2000).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RA Mural R.J., Istrail S., Sutton G.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 (SEP-2005) to the EMBL/GenBank/DDBJ databases.
RN [4]
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 [5]
RP SUBCELLULAR LOCATION, AND MISCELLANEOUS.
RX PubMed=22042635; DOI=10.1074/mcp.m111.013458;
RA Uhlen M., Oksvold P., Algenas C., Hamsten C., Fagerberg L., Klevebring D.,
RA Lundberg E., Odeberg J., Ponten F., Kondo T., Sivertsson A.;
RT "Antibody-based protein profiling of the human chromosome 21.";
RL Mol. Cell. Proteomics 11:M111.013458-M111.013458(2012).
RN [6]
RP POSSIBLE FUNCTION, AND MUTAGENESIS OF ARG-55; ASP-90 AND HIS-118.
RX PubMed=28153719; DOI=10.1016/j.bbrc.2017.01.149;
RA Ghosal A., Koehrer C., Babu V.M., Yamanaka K., Davies B.W., Jacob A.I.,
RA Ferullo D.J., Gruber C.C., Vercruysse M., Walker G.C.;
RT "C21orf57 is a human homologue of bacterial YbeY proteins.";
RL Biochem. Biophys. Res. Commun. 484:612-617(2017).
CC -!- FUNCTION: Single strand-specific metallo-endoribonuclease involved in
CC rRNA maturation. {ECO:0000305|PubMed:28153719}.
CC -!- COFACTOR:
CC Name=Zn(2+); Xref=ChEBI:CHEBI:29105;
CC Evidence={ECO:0000250|UniProtKB:P71335};
CC Note=Binds 1 zinc ion. {ECO:0000250|UniProtKB:P71335};
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000269|PubMed:22042635}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=4;
CC Name=A;
CC IsoId=P58557-1; Sequence=Displayed;
CC Name=B;
CC IsoId=P58557-2; Sequence=VSP_006723;
CC Name=C;
CC IsoId=P58557-3; Sequence=VSP_006721;
CC Name=D;
CC IsoId=P58557-4; Sequence=VSP_006722;
CC -!- MISCELLANEOUS: A protein of the expected size has been detected by
CC antibody binding and Western blot in at least one of the analyzed
CC tissues or cells. {ECO:0000305|PubMed:22042635}.
CC -!- SIMILARITY: Belongs to the endoribonuclease YbeY family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAK74138.1; Type=Erroneous translation; Note=Wrong choice of CDS.; Evidence={ECO:0000305};
CC Sequence=AAK74139.1; Type=Erroneous initiation; Note=Extended N-terminus.; Evidence={ECO:0000305};
CC Sequence=AAK74140.1; Type=Erroneous translation; Note=Wrong choice of CDS.; Evidence={ECO:0000305};
CC Sequence=AAK74141.1; Type=Erroneous translation; Note=Wrong choice of CDS.; Evidence={ECO:0000305};
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DR EMBL; AY040873; AAK74138.1; ALT_SEQ; mRNA.
DR EMBL; AY040874; AAK74139.1; ALT_INIT; mRNA.
DR EMBL; AY040875; AAK74140.1; ALT_SEQ; mRNA.
DR EMBL; AY040876; AAK74141.1; ALT_SEQ; mRNA.
DR EMBL; AP000471; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; CH471079; EAX09288.1; -; Genomic_DNA.
DR EMBL; CH471079; EAX09290.1; -; Genomic_DNA.
DR EMBL; CH471079; EAX09291.1; -; Genomic_DNA.
DR EMBL; CH471079; EAX09293.1; -; Genomic_DNA.
DR CCDS; CCDS33591.1; -. [P58557-1]
DR CCDS; CCDS82685.1; -. [P58557-3]
DR CCDS; CCDS82686.1; -. [P58557-4]
DR CCDS; CCDS82687.1; -. [P58557-2]
DR RefSeq; NP_001300951.1; NM_001314022.1. [P58557-2]
DR RefSeq; NP_001300952.1; NM_001314023.1. [P58557-3]
DR RefSeq; NP_001300953.1; NM_001314024.1. [P58557-4]
DR RefSeq; NP_001300954.1; NM_001314025.1. [P58557-1]
DR RefSeq; NP_001300955.1; NM_001314026.1.
DR RefSeq; NP_478061.1; NM_058181.2. [P58557-1]
DR AlphaFoldDB; P58557; -.
DR SMR; P58557; -.
DR BioGRID; 119869; 153.
DR IntAct; P58557; 67.
DR MINT; P58557; -.
DR STRING; 9606.ENSP00000329614; -.
DR GlyGen; P58557; 1 site, 1 O-linked glycan (1 site).
DR iPTMnet; P58557; -.
DR PhosphoSitePlus; P58557; -.
DR BioMuta; YBEY; -.
DR DMDM; 47117865; -.
DR EPD; P58557; -.
DR jPOST; P58557; -.
DR MassIVE; P58557; -.
DR MaxQB; P58557; -.
DR PaxDb; P58557; -.
DR PeptideAtlas; P58557; -.
DR PRIDE; P58557; -.
DR ProteomicsDB; 57090; -. [P58557-1]
DR ProteomicsDB; 57091; -. [P58557-2]
DR ProteomicsDB; 57092; -. [P58557-3]
DR ProteomicsDB; 57093; -. [P58557-4]
DR TopDownProteomics; P58557-1; -. [P58557-1]
DR TopDownProteomics; P58557-3; -. [P58557-3]
DR Antibodypedia; 10671; 37 antibodies from 10 providers.
DR DNASU; 54059; -.
DR Ensembl; ENST00000329319.7; ENSP00000329614.3; ENSG00000182362.14. [P58557-1]
DR Ensembl; ENST00000339195.10; ENSP00000340675.6; ENSG00000182362.14. [P58557-2]
DR Ensembl; ENST00000397691.1; ENSP00000380805.1; ENSG00000182362.14. [P58557-1]
DR Ensembl; ENST00000397692.5; ENSP00000380806.1; ENSG00000182362.14. [P58557-4]
DR Ensembl; ENST00000397694.5; ENSP00000380808.1; ENSG00000182362.14. [P58557-3]
DR Ensembl; ENST00000397701.9; ENSP00000380813.4; ENSG00000182362.14. [P58557-1]
DR GeneID; 54059; -.
DR KEGG; hsa:54059; -.
DR MANE-Select; ENST00000397701.9; ENSP00000380813.4; NM_001314025.2; NP_001300954.1.
DR UCSC; uc002ziv.4; human. [P58557-1]
DR CTD; 54059; -.
DR DisGeNET; 54059; -.
DR GeneCards; YBEY; -.
DR HGNC; HGNC:1299; YBEY.
DR HPA; ENSG00000182362; Tissue enriched (testis).
DR MIM; 617461; gene.
DR neXtProt; NX_P58557; -.
DR OpenTargets; ENSG00000182362; -.
DR PharmGKB; PA25852; -.
DR VEuPathDB; HostDB:ENSG00000182362; -.
DR eggNOG; ENOG502R6QZ; Eukaryota.
DR GeneTree; ENSGT00950000183170; -.
DR HOGENOM; CLU_106710_4_0_1; -.
DR InParanoid; P58557; -.
DR OMA; IICVDNR; -.
DR OrthoDB; 1269091at2759; -.
DR PhylomeDB; P58557; -.
DR TreeFam; TF332551; -.
DR PathwayCommons; P58557; -.
DR SignaLink; P58557; -.
DR BioGRID-ORCS; 54059; 87 hits in 1087 CRISPR screens.
DR ChiTaRS; YBEY; human.
DR GenomeRNAi; 54059; -.
DR Pharos; P58557; Tdark.
DR PRO; PR:P58557; -.
DR Proteomes; UP000005640; Chromosome 21.
DR RNAct; P58557; protein.
DR Bgee; ENSG00000182362; Expressed in left testis and 188 other tissues.
DR Genevisible; P58557; HS.
DR GO; GO:0005634; C:nucleus; IDA:UniProtKB.
DR GO; GO:0004521; F:endoribonuclease activity; IDA:UniProtKB.
DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR GO; GO:0004222; F:metalloendopeptidase activity; IEA:InterPro.
DR GO; GO:0006364; P:rRNA processing; IEA:InterPro.
DR Gene3D; 3.40.390.30; -; 1.
DR HAMAP; MF_00009; Endoribonucl_YbeY; 1.
DR InterPro; IPR023091; MetalPrtase_cat_dom_sf_prd.
DR InterPro; IPR002036; YbeY.
DR InterPro; IPR020549; YbeY_CS.
DR Pfam; PF02130; YbeY; 1.
DR TIGRFAMs; TIGR00043; TIGR00043; 1.
DR PROSITE; PS01306; UPF0054; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; Endonuclease; Hydrolase; Metal-binding; Nuclease;
KW Nucleus; Reference proteome; Zinc.
FT CHAIN 1..167
FT /note="Endoribonuclease YbeY"
FT /id="PRO_0000102578"
FT BINDING 118
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_note="catalytic"
FT /evidence="ECO:0000250|UniProtKB:P71335"
FT BINDING 122
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_note="catalytic"
FT /evidence="ECO:0000250|UniProtKB:P71335"
FT BINDING 128
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_note="catalytic"
FT /evidence="ECO:0000250|UniProtKB:P71335"
FT VAR_SEQ 26..113
FT /note="Missing (in isoform D)"
FT /evidence="ECO:0000303|PubMed:11707072"
FT /id="VSP_006722"
FT VAR_SEQ 26..70
FT /note="Missing (in isoform C)"
FT /evidence="ECO:0000303|PubMed:11707072"
FT /id="VSP_006721"
FT VAR_SEQ 71..113
FT /note="Missing (in isoform B)"
FT /evidence="ECO:0000303|PubMed:11707072"
FT /id="VSP_006723"
FT MUTAGEN 55
FT /note="R->E: No endonuclease activity."
FT /evidence="ECO:0000269|PubMed:28153719"
FT MUTAGEN 90
FT /note="D->R: No endonuclease activity."
FT /evidence="ECO:0000269|PubMed:28153719"
FT MUTAGEN 118
FT /note="H->A: No endonuclease activity."
FT /evidence="ECO:0000269|PubMed:28153719"
SQ SEQUENCE 167 AA; 19298 MW; 62C42B31B6BA5F26 CRC64;
MSLVIRNLQR VIPIRRAPLR SKIEIVRRIL GVQKFDLGII CVDNKNIQHI NRIYRDRNVP
TDVLSFPFHE HLKAGEFPQP DFPDDYNLGD IFLGVEYIFH QCKENEDYND VLTVTATHGL
CHLLGFTHGT EAEWQQMFQK EKAVLDELGR RTGTRLQPLT RGLFGGS
