YBEY_SALTY
ID YBEY_SALTY Reviewed; 157 AA.
AC O87574; Q9RCI0;
DT 01-DEC-2000, integrated into UniProtKB/Swiss-Prot.
DT 13-DEC-2001, sequence version 2.
DT 03-AUG-2022, entry version 125.
DE RecName: Full=Endoribonuclease YbeY {ECO:0000255|HAMAP-Rule:MF_00009};
DE EC=3.1.-.- {ECO:0000255|HAMAP-Rule:MF_00009};
GN Name=ybeY {ECO:0000255|HAMAP-Rule:MF_00009}; OrderedLocusNames=STM0668;
OS Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720).
OC Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacterales;
OC Enterobacteriaceae; Salmonella.
OX NCBI_TaxID=99287;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=LT2 / SGSC1412 / ATCC 700720;
RX PubMed=11677609; DOI=10.1038/35101614;
RA McClelland M., Sanderson K.E., Spieth J., Clifton S.W., Latreille P.,
RA Courtney L., Porwollik S., Ali J., Dante M., Du F., Hou S., Layman D.,
RA Leonard S., Nguyen C., Scott K., Holmes A., Grewal N., Mulvaney E.,
RA Ryan E., Sun H., Florea L., Miller W., Stoneking T., Nhan M., Waterston R.,
RA Wilson R.K.;
RT "Complete genome sequence of Salmonella enterica serovar Typhimurium LT2.";
RL Nature 413:852-856(2001).
RN [2]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-123.
RC STRAIN=GT522;
RX PubMed=10572129; DOI=10.1128/jb.181.23.7256-7265.1999;
RA Esberg B., Leung H.-C.E., Tsui H.-C.T., Bjoerk G.R., Winkler M.E.;
RT "Identification of the miaB gene, involved in methylthiolation of
RT isopentenylated A37 derivatives in the tRNA of Salmonella typhimurium and
RT Escherichia coli.";
RL J. Bacteriol. 181:7256-7265(1999).
RN [3]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 16-157.
RC STRAIN=LT2;
RA Smith R.L., Ahuga D., Thacker L.K., Maguire M.E.;
RT "Magnesium transport in Salmonella typhimurium: sequence and
RT characterization of the corB, corC, and corD genes.";
RL Submitted (SEP-1998) to the EMBL/GenBank/DDBJ databases.
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:0000255|HAMAP-Rule:MF_00009}.
CC -!- COFACTOR:
CC Name=Zn(2+); Xref=ChEBI:CHEBI:29105;
CC Evidence={ECO:0000255|HAMAP-Rule:MF_00009};
CC Note=Binds 1 zinc ion. {ECO:0000255|HAMAP-Rule:MF_00009};
CC -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000255|HAMAP-Rule:MF_00009}.
CC -!- SIMILARITY: Belongs to the endoribonuclease YbeY family.
CC {ECO:0000255|HAMAP-Rule:MF_00009}.
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DR EMBL; AE006468; AAL19619.1; -; Genomic_DNA.
DR EMBL; AJ249116; CAB62265.1; -; Genomic_DNA.
DR EMBL; AF085347; AAC36473.1; -; Genomic_DNA.
DR RefSeq; NP_459660.1; NC_003197.2.
DR RefSeq; WP_000084476.1; NC_003197.2.
DR AlphaFoldDB; O87574; -.
DR SMR; O87574; -.
DR STRING; 99287.STM0668; -.
DR PaxDb; O87574; -.
DR EnsemblBacteria; AAL19619; AAL19619; STM0668.
DR GeneID; 1252188; -.
DR KEGG; stm:STM0668; -.
DR PATRIC; fig|99287.12.peg.704; -.
DR HOGENOM; CLU_106710_0_1_6; -.
DR OMA; RMRIHPL; -.
DR PhylomeDB; O87574; -.
DR BioCyc; SENT99287:STM0668-MON; -.
DR Proteomes; UP000001014; 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; 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 PANTHER; PTHR46986; PTHR46986; 1.
DR Pfam; PF02130; YbeY; 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..157
FT /note="Endoribonuclease YbeY"
FT /id="PRO_0000102523"
FT BINDING 114
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_note="catalytic"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00009"
FT BINDING 118
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_note="catalytic"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00009"
FT BINDING 124
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_note="catalytic"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00009"
FT CONFLICT 16
FT /note="A -> T (in Ref. 3; AAC36473)"
FT /evidence="ECO:0000305"
FT CONFLICT 26
FT /note="R -> T (in Ref. 3; AAC36473)"
FT /evidence="ECO:0000305"
FT CONFLICT 51..52
FT /note="SH -> TP (in Ref. 3; AAC36473)"
FT /evidence="ECO:0000305"
FT CONFLICT 55
FT /note="N -> I (in Ref. 3; AAC36473)"
FT /evidence="ECO:0000305"
FT CONFLICT 89
FT /note="C -> S (in Ref. 3; AAC36473)"
FT /evidence="ECO:0000305"
FT CONFLICT 101..102
FT /note="SK -> TN (in Ref. 3; AAC36473)"
FT /evidence="ECO:0000305"
FT CONFLICT 155..156
FT /note="Missing (in Ref. 3; AAC36473)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 157 AA; 17784 MW; 885D789C5B91A50A CRC64;
MSQVILDLQL ACENHAGLPD EAQFQRWLDG VIPQFQEEAE VTIRLVDEAE SHDLNLTYRG
KDKPTNVLSF PFEAPAGIEM PLLGDLIICR QVVEQEAQEQ SKPLEAHWAH MVVHGSLHLL
GYDHIDDDEA EEMESLETEI MLAMGYEDPY IAEKIAE
