ID   YBEY_MYXXD              Reviewed;         294 AA.
AC   Q1D375;
DT   17-APR-2007, integrated into UniProtKB/Swiss-Prot.
DT   11-JUL-2006, sequence version 1.
DT   03-AUG-2022, entry version 101.
DE   RecName: Full=Endoribonuclease YbeY;
DE            EC=3.1.-.-;
GN   Name=ybeY; OrderedLocusNames=MXAN_4736;
OS   Myxococcus xanthus (strain DK1622).
OC   Bacteria; Proteobacteria; Deltaproteobacteria; Myxococcales;
OC   Cystobacterineae; Myxococcaceae; Myxococcus.
OX   NCBI_TaxID=246197;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=DK1622;
RX   PubMed=17015832; DOI=10.1073/pnas.0607335103;
RA   Goldman B.S., Nierman W.C., Kaiser D., Slater S.C., Durkin A.S., Eisen J.,
RA   Ronning C.M., Barbazuk W.B., Blanchard M., Field C., Halling C., Hinkle G.,
RA   Iartchuk O., Kim H.S., Mackenzie C., Madupu R., Miller N., Shvartsbeyn A.,
RA   Sullivan S.A., Vaudin M., Wiegand R., Kaplan H.B.;
RT   "Evolution of sensory complexity recorded in a myxobacterial genome.";
RL   Proc. Natl. Acad. Sci. U.S.A. 103:15200-15205(2006).
CC   -!- FUNCTION: Single strand-specific metallo-endoribonuclease involved in
CC       late-stage 70S ribosome quality control and in maturation of the 3'
CC       terminus of the 16S rRNA. {ECO:0000250}.
CC   -!- COFACTOR:
CC       Name=Zn(2+); Xref=ChEBI:CHEBI:29105; Evidence={ECO:0000250};
CC       Note=Binds 1 zinc ion. {ECO:0000250};
CC   -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000250}.
CC   -!- SIMILARITY: Belongs to the endoribonuclease YbeY family. {ECO:0000305}.
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DR   EMBL; CP000113; ABF89694.1; -; Genomic_DNA.
DR   AlphaFoldDB; Q1D375; -.
DR   SMR; Q1D375; -.
DR   STRING; 246197.MXAN_4736; -.
DR   EnsemblBacteria; ABF89694; ABF89694; MXAN_4736.
DR   KEGG; mxa:MXAN_4736; -.
DR   eggNOG; COG0319; Bacteria.
DR   eggNOG; COG0662; Bacteria.
DR   HOGENOM; CLU_946034_0_0_7; -.
DR   OMA; GACDYWS; -.
DR   Proteomes; UP000002402; Chromosome.
DR   GO; GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
DR   GO; GO:0004521; F:endoribonuclease activity; IEA:UniProtKB-UniRule.
DR   GO; GO:0004222; F:metalloendopeptidase activity; IEA:InterPro.
DR   GO; GO:0008270; F:zinc ion binding; IEA:UniProtKB-UniRule.
DR   GO; GO:0006364; P:rRNA processing; IEA:UniProtKB-UniRule.
DR   Gene3D; 2.60.120.10; -; 1.
DR   Gene3D; 3.40.390.30; -; 1.
DR   HAMAP; MF_00009; Endoribonucl_YbeY; 1.
DR   InterPro; IPR013096; Cupin_2.
DR   InterPro; IPR023091; MetalPrtase_cat_dom_sf_prd.
DR   InterPro; IPR014710; RmlC-like_jellyroll.
DR   InterPro; IPR011051; RmlC_Cupin_sf.
DR   InterPro; IPR002036; YbeY.
DR   InterPro; IPR020549; YbeY_CS.
DR   PANTHER; PTHR46986; PTHR46986; 1.
DR   Pfam; PF07883; Cupin_2; 1.
DR   Pfam; PF02130; YbeY; 1.
DR   SUPFAM; SSF51182; SSF51182; 1.
DR   TIGRFAMs; TIGR00043; TIGR00043; 1.
DR   PROSITE; PS01306; UPF0054; 1.
PE   3: Inferred from homology;
KW   Cytoplasm; Endonuclease; Hydrolase; Metal-binding; Nuclease;
KW   Reference proteome; Ribosome biogenesis; rRNA processing; Zinc.
FT   CHAIN           1..294
FT                   /note="Endoribonuclease YbeY"
FT                   /id="PRO_0000284252"
FT   REGION          1..122
FT                   /note="Unknown"
FT   REGION          123..294
FT                   /note="Endoribonuclease YbeY"
FT   BINDING         244
FT                   /ligand="Zn(2+)"
FT                   /ligand_id="ChEBI:CHEBI:29105"
FT                   /ligand_note="catalytic"
FT                   /evidence="ECO:0000250"
FT   BINDING         248
FT                   /ligand="Zn(2+)"
FT                   /ligand_id="ChEBI:CHEBI:29105"
FT                   /ligand_note="catalytic"
FT                   /evidence="ECO:0000250"
FT   BINDING         254
FT                   /ligand="Zn(2+)"
FT                   /ligand_id="ChEBI:CHEBI:29105"
FT                   /ligand_note="catalytic"
FT                   /evidence="ECO:0000250"
SQ   SEQUENCE   294 AA;  32608 MW;  9D00D734CF84FED2 CRC64;
     MSGARRGNGV RLRKGKLIPR DDGKRIEEFV GAATTSTDSA SVARMLAPPG WSEPAQRPEF
     DEVVIVLTGE LTIVVEGRRE RISAGEVGLV PRGKRVVYRN DGQGACDYWS VCAPAFRPEL
     AHMETPKPRV QENHVTIQVA HGQGRDFARL LTTWARAYLV QLELSGVELS LSLVDDRAIR
     RLNRTWRKKD KATDVLSFPA GDLPKGTPGP RPLGDVVISL DTAKRQAKEY GRTLESEMAR
     YLAHGLLHLL GHDHERPRDA KRMAALEEQL LGERGMVADS LQVDAKARRA RSLM