ID   RNY_CLOD6               Reviewed;         513 AA.
AC   Q18BJ3;
DT   22-JUL-2008, integrated into UniProtKB/Swiss-Prot.
DT   21-SEP-2011, sequence version 2.
DT   03-AUG-2022, entry version 103.
DE   RecName: Full=Ribonuclease Y {ECO:0000255|HAMAP-Rule:MF_00335};
DE            Short=RNase Y {ECO:0000255|HAMAP-Rule:MF_00335};
DE            EC=3.1.-.- {ECO:0000255|HAMAP-Rule:MF_00335};
GN   Name=rny {ECO:0000255|HAMAP-Rule:MF_00335}; OrderedLocusNames=CD630_13290;
OS   Clostridioides difficile (strain 630) (Peptoclostridium difficile).
OC   Bacteria; Firmicutes; Clostridia; Eubacteriales; Peptostreptococcaceae;
OC   Clostridioides.
OX   NCBI_TaxID=272563;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=630;
RX   PubMed=16804543; DOI=10.1038/ng1830;
RA   Sebaihia M., Wren B.W., Mullany P., Fairweather N.F., Minton N.,
RA   Stabler R., Thomson N.R., Roberts A.P., Cerdeno-Tarraga A.M., Wang H.,
RA   Holden M.T.G., Wright A., Churcher C., Quail M.A., Baker S., Bason N.,
RA   Brooks K., Chillingworth T., Cronin A., Davis P., Dowd L., Fraser A.,
RA   Feltwell T., Hance Z., Holroyd S., Jagels K., Moule S., Mungall K.,
RA   Price C., Rabbinowitsch E., Sharp S., Simmonds M., Stevens K., Unwin L.,
RA   Whithead S., Dupuy B., Dougan G., Barrell B., Parkhill J.;
RT   "The multidrug-resistant human pathogen Clostridium difficile has a highly
RT   mobile, mosaic genome.";
RL   Nat. Genet. 38:779-786(2006).
CC   -!- FUNCTION: Endoribonuclease that initiates mRNA decay.
CC       {ECO:0000255|HAMAP-Rule:MF_00335}.
CC   -!- SUBCELLULAR LOCATION: Cell membrane {ECO:0000255|HAMAP-Rule:MF_00335};
CC       Single-pass membrane protein {ECO:0000255|HAMAP-Rule:MF_00335}.
CC   -!- SIMILARITY: Belongs to the RNase Y family. {ECO:0000255|HAMAP-
CC       Rule:MF_00335}.
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DR   EMBL; AM180355; CAJ68187.2; -; Genomic_DNA.
DR   RefSeq; WP_003428216.1; NZ_CP010905.2.
DR   RefSeq; YP_001087825.2; NC_009089.1.
DR   AlphaFoldDB; Q18BJ3; -.
DR   STRING; 272563.CD630_13290; -.
DR   DNASU; 4914616; -.
DR   EnsemblBacteria; CAJ68187; CAJ68187; CD630_13290.
DR   GeneID; 66353730; -.
DR   KEGG; cdf:CD630_13290; -.
DR   PATRIC; fig|272563.8.peg.1396; -.
DR   eggNOG; COG1418; Bacteria.
DR   OMA; PHAILGM; -.
DR   PhylomeDB; Q18BJ3; -.
DR   BioCyc; PDIF272563:G12WB-1464-MON; -.
DR   Proteomes; UP000001978; Chromosome.
DR   GO; GO:0016021; C:integral component of membrane; IEA:UniProtKB-KW.
DR   GO; GO:0005886; C:plasma membrane; IEA:UniProtKB-SubCell.
DR   GO; GO:0004521; F:endoribonuclease activity; IEA:UniProtKB-UniRule.
DR   GO; GO:0003723; F:RNA binding; IEA:UniProtKB-UniRule.
DR   GO; GO:0006402; P:mRNA catabolic process; IEA:UniProtKB-UniRule.
DR   CDD; cd00077; HDc; 1.
DR   Gene3D; 3.30.1370.10; -; 1.
DR   HAMAP; MF_00335; RNase_Y; 1.
DR   InterPro; IPR003607; HD/PDEase_dom.
DR   InterPro; IPR006674; HD_domain.
DR   InterPro; IPR006675; HDIG_dom.
DR   InterPro; IPR004087; KH_dom.
DR   InterPro; IPR004088; KH_dom_type_1.
DR   InterPro; IPR036612; KH_dom_type_1_sf.
DR   InterPro; IPR017705; Ribonuclease_Y.
DR   InterPro; IPR022711; RNase_Y_N.
DR   PANTHER; PTHR12826:SF15; PTHR12826:SF15; 1.
DR   Pfam; PF01966; HD; 1.
DR   Pfam; PF00013; KH_1; 1.
DR   Pfam; PF12072; RNase_Y_N; 1.
DR   SMART; SM00471; HDc; 1.
DR   SMART; SM00322; KH; 1.
DR   SUPFAM; SSF54791; SSF54791; 1.
DR   TIGRFAMs; TIGR00277; HDIG; 1.
DR   TIGRFAMs; TIGR03319; RNase_Y; 1.
DR   PROSITE; PS51831; HD; 1.
DR   PROSITE; PS50084; KH_TYPE_1; 1.
PE   3: Inferred from homology;
KW   Cell membrane; Endonuclease; Hydrolase; Membrane; Nuclease;
KW   Reference proteome; RNA-binding; Transmembrane; Transmembrane helix.
FT   CHAIN           1..513
FT                   /note="Ribonuclease Y"
FT                   /id="PRO_0000344850"
FT   TRANSMEM        3..23
FT                   /note="Helical"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00335"
FT   DOMAIN          203..266
FT                   /note="KH"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00335"
FT   DOMAIN          329..422
FT                   /note="HD"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU01175"
SQ   SEQUENCE   513 AA;  58150 MW;  9D561DDFDCA3FA76 CRC64;
     MDVIDSVVMI VIGAAVGIIA GYFVRKNISE AKIGQAENLA KEIIDKAHHD SETVQKEKLL
     EAKEEIHKWR TEAERENRER RTEVQKYEKR VVQKEEVLDR KLQNLESKEV NLSEKLKVVE
     KKEEEVEVIK TQQLEKLESI SGITSDKAKE IILTNAERDV RREMSIMIKE IESQAKEEAD
     KKSREIIGYA IQKCAADHVA ETTVTVVSLP NDEMKGRIIG REGRNIRTLE TLTGIDLIID
     DTPEAVILSG FDPIRREIAR IALEKLIADG RIHPARIEEM VEKARKEVDN IIKEYGEQAA
     FETSVHGIHP ELIRLLGRLN YRTSYGQNVL KHSIEVAHIA GIMAAEIGAD IRLAKRAGLL
     HDIGKAVDHE MEGTHVEIGM DLLRRYKESK EVIHAMSTHH GDYEPQTVEA VLVTAADAIS
     AARPGARRET LEAYIKRLEK LEEIANSYEG VEKSFAIQAG REIRIMVKPE AINDEEIHLL
     ARDMTKKIED ELEYPGQIKV SIIRETRAIE YAK