RNR_SHIFL
ID RNR_SHIFL Reviewed; 813 AA.
AC P30851;
DT 01-JUL-1993, integrated into UniProtKB/Swiss-Prot.
DT 10-JAN-2003, sequence version 4.
DT 03-AUG-2022, entry version 153.
DE RecName: Full=Ribonuclease R {ECO:0000255|HAMAP-Rule:MF_01895};
DE Short=RNase R {ECO:0000255|HAMAP-Rule:MF_01895};
DE EC=3.1.13.1 {ECO:0000255|HAMAP-Rule:MF_01895};
DE AltName: Full=Protein VacB;
GN Name=rnr {ECO:0000255|HAMAP-Rule:MF_01895}; Synonyms=vacB;
GN OrderedLocusNames=SF4334, S4602;
OS Shigella flexneri.
OC Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacterales;
OC Enterobacteriaceae; Shigella.
OX NCBI_TaxID=623;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=301 / Serotype 2a;
RX PubMed=12384590; DOI=10.1093/nar/gkf566;
RA Jin Q., Yuan Z., Xu J., Wang Y., Shen Y., Lu W., Wang J., Liu H., Yang J.,
RA Yang F., Zhang X., Zhang J., Yang G., Wu H., Qu D., Dong J., Sun L.,
RA Xue Y., Zhao A., Gao Y., Zhu J., Kan B., Ding K., Chen S., Cheng H.,
RA Yao Z., He B., Chen R., Ma D., Qiang B., Wen Y., Hou Y., Yu J.;
RT "Genome sequence of Shigella flexneri 2a: insights into pathogenicity
RT through comparison with genomes of Escherichia coli K12 and O157.";
RL Nucleic Acids Res. 30:4432-4441(2002).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=ATCC 700930 / 2457T / Serotype 2a;
RX PubMed=12704152; DOI=10.1128/iai.71.5.2775-2786.2003;
RA Wei J., Goldberg M.B., Burland V., Venkatesan M.M., Deng W., Fournier G.,
RA Mayhew G.F., Plunkett G. III, Rose D.J., Darling A., Mau B., Perna N.T.,
RA Payne S.M., Runyen-Janecky L.J., Zhou S., Schwartz D.C., Blattner F.R.;
RT "Complete genome sequence and comparative genomics of Shigella flexneri
RT serotype 2a strain 2457T.";
RL Infect. Immun. 71:2775-2786(2003).
RN [3]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-770.
RC STRAIN=YSH6000 / Serotype 2a;
RX PubMed=1400189; DOI=10.1128/jb.174.20.6359-6367.1992;
RA Tobe T., Sasakawa C., Okada N., Honma Y., Yoshikawa M.;
RT "vacB, a novel chromosomal gene required for expression of virulence genes
RT on the large plasmid of Shigella flexneri.";
RL J. Bacteriol. 174:6359-6367(1992).
RN [4]
RP SEQUENCE REVISION.
RX PubMed=9603904; DOI=10.1074/jbc.273.23.14077;
RA Cheng Z.-F., Zuo Y., Li Z., Rudd K.E., Deutscher M.P.;
RT "The vacB gene required for virulence in Shigella flexneri and Escherichia
RT coli encodes the exoribonuclease RNase R.";
RL J. Biol. Chem. 273:14077-14080(1998).
CC -!- FUNCTION: 3'-5' exoribonuclease that releases 5'-nucleoside
CC monophosphates and is involved in maturation of structured RNAs (By
CC similarity). Required for the expression of virulence genes on the
CC large plasmid of S.flexneri at the post-transcriptional level.
CC {ECO:0000255|HAMAP-Rule:MF_01895}.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=Exonucleolytic cleavage in the 3'- to 5'-direction to yield
CC nucleoside 5'-phosphates.; EC=3.1.13.1; Evidence={ECO:0000255|HAMAP-
CC Rule:MF_01895};
CC -!- SUBUNIT: Monomer. {ECO:0000255|HAMAP-Rule:MF_01895}.
CC -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000255|HAMAP-Rule:MF_01895}.
CC -!- SIMILARITY: Belongs to the RNR ribonuclease family. RNase R subfamily.
CC {ECO:0000255|HAMAP-Rule:MF_01895}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAN45751.1; Type=Erroneous initiation; Note=Extended N-terminus.; Evidence={ECO:0000305};
CC Sequence=AAP19534.1; Type=Erroneous initiation; Note=Extended N-terminus.; Evidence={ECO:0000305};
CC Sequence=BAA01777.1; Type=Miscellaneous discrepancy; Note=Several sequencing errors.; Evidence={ECO:0000305};
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DR EMBL; AE005674; AAN45751.1; ALT_INIT; Genomic_DNA.
DR EMBL; AE014073; AAP19534.1; ALT_INIT; Genomic_DNA.
DR EMBL; D11024; BAA01777.1; ALT_FRAME; Genomic_DNA.
DR RefSeq; NP_710044.3; NC_004337.2.
DR RefSeq; WP_000076311.1; NZ_WPGW01000048.1.
DR AlphaFoldDB; P30851; -.
DR SMR; P30851; -.
DR STRING; 198214.SF4334; -.
DR EnsemblBacteria; AAN45751; AAN45751; SF4334.
DR EnsemblBacteria; AAP19534; AAP19534; S4602.
DR GeneID; 1025395; -.
DR KEGG; sfl:SF4334; -.
DR KEGG; sft:NCTC1_04709; -.
DR KEGG; sfx:S4602; -.
DR PATRIC; fig|198214.7.peg.5108; -.
DR HOGENOM; CLU_002333_7_0_6; -.
DR OrthoDB; 1602988at2; -.
DR Proteomes; UP000001006; Chromosome.
DR Proteomes; UP000002673; Chromosome.
DR GO; GO:0005829; C:cytosol; IEA:UniProt.
DR GO; GO:0008859; F:exoribonuclease II activity; IEA:UniProtKB-UniRule.
DR GO; GO:0003723; F:RNA binding; IEA:UniProtKB-UniRule.
DR Gene3D; 2.40.50.140; -; 3.
DR HAMAP; MF_01895; RNase_R; 1.
DR InterPro; IPR011129; CSD.
DR InterPro; IPR040476; CSD2.
DR InterPro; IPR012340; NA-bd_OB-fold.
DR InterPro; IPR013223; RNase_B_OB_dom.
DR InterPro; IPR001900; RNase_II/R.
DR InterPro; IPR022966; RNase_II/R_CS.
DR InterPro; IPR004476; RNase_II/RNase_R.
DR InterPro; IPR011805; RNase_R.
DR InterPro; IPR013668; RNase_R_HTH_12.
DR InterPro; IPR022967; S1_dom.
DR InterPro; IPR003029; S1_domain.
DR Pfam; PF17876; CSD2; 1.
DR Pfam; PF08461; HTH_12; 1.
DR Pfam; PF08206; OB_RNB; 1.
DR Pfam; PF00773; RNB; 1.
DR Pfam; PF00575; S1; 1.
DR SMART; SM00357; CSP; 1.
DR SMART; SM00955; RNB; 1.
DR SMART; SM00316; S1; 1.
DR SUPFAM; SSF50249; SSF50249; 4.
DR TIGRFAMs; TIGR00358; 3_prime_RNase; 1.
DR TIGRFAMs; TIGR02063; RNase_R; 1.
DR PROSITE; PS01175; RIBONUCLEASE_II; 1.
DR PROSITE; PS50126; S1; 1.
PE 3: Inferred from homology;
KW Acetylation; Cytoplasm; Exonuclease; Hydrolase; Nuclease;
KW Reference proteome; RNA-binding; Virulence.
FT CHAIN 1..813
FT /note="Ribonuclease R"
FT /id="PRO_0000166411"
FT DOMAIN 644..725
FT /note="S1 motif"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_01895"
FT REGION 733..813
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 733..778
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOD_RES 544
FT /note="N6-acetyllysine"
FT /evidence="ECO:0000250"
FT CONFLICT 520..521
FT /note="AE -> GQ (in Ref. 3; BAA01777)"
FT /evidence="ECO:0000305"
FT CONFLICT 624
FT /note="D -> E (in Ref. 3; BAA01777)"
FT /evidence="ECO:0000305"
FT CONFLICT 628
FT /note="R -> G (in Ref. 3; BAA01777)"
FT /evidence="ECO:0000305"
FT CONFLICT 718
FT /note="R -> A (in Ref. 3; BAA01777)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 813 AA; 92066 MW; 759B6D1B40C24494 CRC64;
MSQDPFQERE AEKYANPIPS REFILEHLTK REKPASRDEL AVELHIEGEE QLEGLRRRLR
AMERDGQLVF TRRQCYALPE RLDLVKGTVI GHRDGYGFLR VEGRKDDLYL SSEQMKTCIH
GDQVLAQPLG ADRKGRREAR IVRVLVPKTS QIVGRYFTEA GVGFVVPDDS RLSFDILIPP
DQIMGARMGF VVVVELTQRP TRRTKAVGKI VEVLGDNMGT GMAVDIALRT HEIPYIWPQA
VEQQVAGLKE EVPEEAKAGR VDLRDLPLVT IDGEDARDFD DAVYCEKKRG GGWRLWVAIA
DVSYYVRPPT PLDREARNRG TSVYFPSQVI PMLPEVLSNG LCSLNPQVDR LCMVCEMTVS
SKGRLTGYKF YEAVMSSHAR LTYTKVWHIL QGDQDLREQY APLVKHLEEL HNLYKVLDKA
REERGGISFE SEEAKFIFNA ERRIERIEQT QRNDAHKLIE ECMILANISA ARFVEKAKEP
ALFRIHDKPS TEAITSFRSV LAELGLELPG GNKPEPRDYA ELLESVADRP DAEMLQTMLL
RSMKQAIYDP ENRGHFGLAL QSYAHFTSPI RRYPDLTLHR AIKYLLAKEQ GHQGNTTETG
GYHYSMEEML QLGQHCSMAE RRADEATRDV ADWLKCDFML DQVGNVFKGV ISSVTGFGFF
VRLDDLFIDG LVHVSSLDND YYRFDQVGQR LMGESSGQTY RLGDRVEVRV EAVNMDERKI
DFSLISSERA PRNVGKTARE KAKKGDAGKK GGKRCQVGKK VNFEPDSAFR GEKKTKPKAA
KKDARKAKKP SAKTQKIAAA TKAKRAAKKK VAE
