ID   YHAM_BACSU              Reviewed;         314 AA.
AC   O07521; Q796V2;
DT   19-JUL-2005, integrated into UniProtKB/Swiss-Prot.
DT   01-JUL-1997, sequence version 1.
DT   03-AUG-2022, entry version 130.
DE   RecName: Full=3'-5' exoribonuclease YhaM;
DE            EC=3.1.-.-;
GN   Name=yhaM; OrderedLocusNames=BSU09930;
OS   Bacillus subtilis (strain 168).
OC   Bacteria; Firmicutes; Bacilli; Bacillales; Bacillaceae; Bacillus.
OX   NCBI_TaxID=224308;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC   STRAIN=168;
RX   PubMed=9579061; DOI=10.1099/00221287-144-4-859;
RA   Noback M.A., Holsappel S., Kiewiet R., Terpstra P., Wambutt R., Wedler H.,
RA   Venema G., Bron S.;
RT   "The 172 kb prkA-addAB region from 83 degrees to 97 degrees of the Bacillus
RT   subtilis chromosome contains several dysfunctional genes, the glyB marker,
RT   many genes encoding transporter proteins, and the ubiquitous hit gene.";
RL   Microbiology 144:859-875(1998).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=168;
RX   PubMed=9384377; DOI=10.1038/36786;
RA   Kunst F., Ogasawara N., Moszer I., Albertini A.M., Alloni G., Azevedo V.,
RA   Bertero M.G., Bessieres P., Bolotin A., Borchert S., Borriss R.,
RA   Boursier L., Brans A., Braun M., Brignell S.C., Bron S., Brouillet S.,
RA   Bruschi C.V., Caldwell B., Capuano V., Carter N.M., Choi S.-K.,
RA   Codani J.-J., Connerton I.F., Cummings N.J., Daniel R.A., Denizot F.,
RA   Devine K.M., Duesterhoeft A., Ehrlich S.D., Emmerson P.T., Entian K.-D.,
RA   Errington J., Fabret C., Ferrari E., Foulger D., Fritz C., Fujita M.,
RA   Fujita Y., Fuma S., Galizzi A., Galleron N., Ghim S.-Y., Glaser P.,
RA   Goffeau A., Golightly E.J., Grandi G., Guiseppi G., Guy B.J., Haga K.,
RA   Haiech J., Harwood C.R., Henaut A., Hilbert H., Holsappel S., Hosono S.,
RA   Hullo M.-F., Itaya M., Jones L.-M., Joris B., Karamata D., Kasahara Y.,
RA   Klaerr-Blanchard M., Klein C., Kobayashi Y., Koetter P., Koningstein G.,
RA   Krogh S., Kumano M., Kurita K., Lapidus A., Lardinois S., Lauber J.,
RA   Lazarevic V., Lee S.-M., Levine A., Liu H., Masuda S., Mauel C.,
RA   Medigue C., Medina N., Mellado R.P., Mizuno M., Moestl D., Nakai S.,
RA   Noback M., Noone D., O'Reilly M., Ogawa K., Ogiwara A., Oudega B.,
RA   Park S.-H., Parro V., Pohl T.M., Portetelle D., Porwollik S.,
RA   Prescott A.M., Presecan E., Pujic P., Purnelle B., Rapoport G., Rey M.,
RA   Reynolds S., Rieger M., Rivolta C., Rocha E., Roche B., Rose M., Sadaie Y.,
RA   Sato T., Scanlan E., Schleich S., Schroeter R., Scoffone F., Sekiguchi J.,
RA   Sekowska A., Seror S.J., Serror P., Shin B.-S., Soldo B., Sorokin A.,
RA   Tacconi E., Takagi T., Takahashi H., Takemaru K., Takeuchi M.,
RA   Tamakoshi A., Tanaka T., Terpstra P., Tognoni A., Tosato V., Uchiyama S.,
RA   Vandenbol M., Vannier F., Vassarotti A., Viari A., Wambutt R., Wedler E.,
RA   Wedler H., Weitzenegger T., Winters P., Wipat A., Yamamoto H., Yamane K.,
RA   Yasumoto K., Yata K., Yoshida K., Yoshikawa H.-F., Zumstein E.,
RA   Yoshikawa H., Danchin A.;
RT   "The complete genome sequence of the Gram-positive bacterium Bacillus
RT   subtilis.";
RL   Nature 390:249-256(1997).
RN   [3]
RP   FUNCTION.
RC   STRAIN=BG1;
RX   PubMed=12399495; DOI=10.1128/jb.184.22.6250-6259.2002;
RA   Oussenko I.A., Sanchez R., Bechhofer D.H.;
RT   "Bacillus subtilis YhaM, a member of a new family of 3'-to-5' exonucleases
RT   in Gram-positive bacteria.";
RL   J. Bacteriol. 184:6250-6259(2002).
RN   [4]
RP   INDUCTION BY MITOMYCIN C AND UV, AND PROBABLE OPERON STRUCTURE.
RC   STRAIN=168 / YB886 / BG214;
RX   PubMed=16267290; DOI=10.1128/jb.187.22.7655-7666.2005;
RA   Au N., Kuester-Schoeck E., Mandava V., Bothwell L.E., Canny S.P.,
RA   Chachu K., Colavito S.A., Fuller S.N., Groban E.S., Hensley L.A.,
RA   O'Brien T.C., Shah A., Tierney J.T., Tomm L.L., O'Gara T.M., Goranov A.I.,
RA   Grossman A.D., Lovett C.M.;
RT   "Genetic composition of the Bacillus subtilis SOS system.";
RL   J. Bacteriol. 187:7655-7666(2005).
RN   [5]
RP   FUNCTION IN 23S RRNA PROCESSING, RNASE ACTIVITY, AND DISRUPTION PHENOTYPE.
RX   PubMed=19880604; DOI=10.1128/jb.01096-09;
RA   Redko Y., Condon C.;
RT   "Maturation of 23S rRNA in Bacillus subtilis in the absence of Mini-III.";
RL   J. Bacteriol. 192:356-359(2010).
CC   -!- FUNCTION: Shows a 3'-5' exoribonuclease activity as well as single-
CC       stranded DNA 3'-5'exonuclease activity. Plays a role in the secondary
CC       pathway of 23S rRNA 3' end maturation. {ECO:0000269|PubMed:12399495,
CC       ECO:0000269|PubMed:19880604}.
CC   -!- COFACTOR:
CC       Name=Mn(2+); Xref=ChEBI:CHEBI:29035;
CC       Name=Co(2+); Xref=ChEBI:CHEBI:48828;
CC   -!- INDUCTION: By mitomycin C and UV irradiation which requires RecA;
CC       probably a member of the yhaONM operon. {ECO:0000269|PubMed:16267290}.
CC   -!- DISRUPTION PHENOTYPE: Correct processing of the 3' end of 23S rRNA no
CC       longer occurs in the absence of mrnC. {ECO:0000269|PubMed:19880604}.
CC   -!- SIMILARITY: Belongs to the YhaM family. {ECO:0000305}.
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DR   EMBL; Y14078; CAA74420.1; -; Genomic_DNA.
DR   EMBL; AL009126; CAB12833.1; -; Genomic_DNA.
DR   PIR; G69818; G69818.
DR   RefSeq; NP_388874.1; NC_000964.3.
DR   RefSeq; WP_003245698.1; NZ_JNCM01000035.1.
DR   AlphaFoldDB; O07521; -.
DR   SMR; O07521; -.
DR   IntAct; O07521; 4.
DR   STRING; 224308.BSU09930; -.
DR   jPOST; O07521; -.
DR   PaxDb; O07521; -.
DR   PRIDE; O07521; -.
DR   DNASU; 939762; -.
DR   EnsemblBacteria; CAB12833; CAB12833; BSU_09930.
DR   GeneID; 939762; -.
DR   KEGG; bsu:BSU09930; -.
DR   PATRIC; fig|224308.179.peg.1066; -.
DR   eggNOG; COG3481; Bacteria.
DR   InParanoid; O07521; -.
DR   OMA; NLVGHLV; -.
DR   PhylomeDB; O07521; -.
DR   BioCyc; BSUB:BSU09930-MON; -.
DR   Proteomes; UP000001570; Chromosome.
DR   GO; GO:0000175; F:3'-5'-exoribonuclease activity; IEA:UniProtKB-UniRule.
DR   GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR   GO; GO:0031125; P:rRNA 3'-end processing; IMP:UniProtKB.
DR   CDD; cd00077; HDc; 1.
DR   Gene3D; 2.40.50.140; -; 1.
DR   HAMAP; MF_01427; 3_5_Exoribonuc_YhaM; 1.
DR   InterPro; IPR020873; 3'-5'_exoribonuclease_YhaM.
DR   InterPro; IPR003607; HD/PDEase_dom.
DR   InterPro; IPR006674; HD_domain.
DR   InterPro; IPR012340; NA-bd_OB-fold.
DR   Pfam; PF01966; HD; 1.
DR   SMART; SM00471; HDc; 1.
DR   SUPFAM; SSF50249; SSF50249; 1.
DR   PROSITE; PS51831; HD; 1.
PE   1: Evidence at protein level;
KW   Cobalt; DNA-binding; Exonuclease; Hydrolase; Manganese; Nuclease;
KW   Reference proteome; rRNA processing.
FT   CHAIN           1..314
FT                   /note="3'-5' exoribonuclease YhaM"
FT                   /id="PRO_0000109861"
FT   DOMAIN          163..279
FT                   /note="HD"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU01175"
FT   DNA_BIND        22..90
FT                   /note="OB"
SQ   SEQUENCE   314 AA;  35683 MW;  BC4D7E209DD26085 CRC64;
     MAKGIMLHEV GEQVDQYLLI KSSTKGIASN GKPFLTLMLQ DQSGDIEAKL WDAKQSDEVT
     YAPQTIVKVV GDVHHYRGRT QLKLRNIRPV SEQENVNIDD FLETAPIPKN EMMDTITQYI
     FEMKNPNIQR ITRFLVKKHE AEFMDYPAAT KNHHEFVSGL AYHVVSMLNL AKAIADLYPS
     LDRDLLYAGV ILHDLGKVKE LSGPVSTSYT VEGNLLGHIS IMVTELSKAA EELQIDSEEV
     LILQHLILSH HGKAEWGSPK PPMVKEAEIL HYIDNLDAKM NMMDRALERV KPGEYTERVF
     ALENRSFYKP TFHK