ID   WAPA_BACNB              Reviewed;        2347 AA.
AC   D4G3R4;
DT   16-OCT-2013, integrated into UniProtKB/Swiss-Prot.
DT   14-OCT-2015, sequence version 2.
DT   25-MAY-2022, entry version 46.
DE   RecName: Full=tRNA(Glu)-specific nuclease WapA;
DE            EC=3.1.-.-;
DE   AltName: Full=Cell wall-associated protein;
DE   AltName: Full=RNase WapA;
DE   AltName: Full=Toxin WapA;
DE   Flags: Precursor;
GN   Name=wapA; ORFNames=BSNT_10605;
OS   Bacillus subtilis subsp. natto (strain BEST195).
OC   Bacteria; Firmicutes; Bacilli; Bacillales; Bacillaceae; Bacillus.
OX   NCBI_TaxID=645657;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=BEST195;
RX   PubMed=20398357; DOI=10.1186/1471-2164-11-243;
RA   Nishito Y., Osana Y., Hachiya T., Popendorf K., Toyoda A., Fujiyama A.,
RA   Itaya M., Sakakibara Y.;
RT   "Whole genome assembly of a natto production strain Bacillus subtilis natto
RT   from very short read data.";
RL   BMC Genomics 11:243-243(2010).
RN   [2]
RP   GENOME REANNOTATION.
RC   STRAIN=BEST195;
RX   PubMed=25329997; DOI=10.1371/journal.pone.0109999;
RA   Kamada M., Hase S., Sato K., Toyoda A., Fujiyama A., Sakakibara Y.;
RT   "Whole genome complete resequencing of Bacillus subtilis natto by combining
RT   long reads with high-quality short reads.";
RL   PLoS ONE 9:E109999-E109999(2014).
RN   [3]
RP   FUNCTION AS A TRNA NUCLEASE, FUNCTION AS A TOXIN, AND EXPRESSION IN E.COLI.
RC   STRAIN=BEST195;
RX   PubMed=23572593; DOI=10.1073/pnas.1300627110;
RA   Koskiniemi S., Lamoureux J.G., Nikolakakis K.C., t'Kint de Roodenbeke C.,
RA   Kaplan M.D., Low D.A., Hayes C.S.;
RT   "Rhs proteins from diverse bacteria mediate intercellular competition.";
RL   Proc. Natl. Acad. Sci. U.S.A. 110:7032-7037(2013).
CC   -!- FUNCTION: Toxic component of a toxin-immunity protein module, which
CC       functions as a cellular contact-dependent growth inhibition (CDI)
CC       system. A site-specific tRNA(Glu) nuclease, the C-terminus (residues
CC       2214-2346) probably removes 2 or 4 nucleotides from the 3' end of
CC       tRNA(Glu) but not tRNA2(Arg) or tRNA3(Ser) (upon expression in E.coli),
CC       possibly endonucleolytically. The nuclease activity is neutralized by
CC       expression of the cognate immunity protein WapI from the same strain,
CC       but not its homolog from 2 other B.subtilis strains. The C-terminus
CC       cannot be expressed on its own in E.coli, however it can be cloned in
CC       the presence of its cognate immunity protein gene wapI. Cell contact is
CC       probably necessary for growth inhibition.
CC       {ECO:0000269|PubMed:23572593}.
CC   -!- SUBCELLULAR LOCATION: Secreted, cell wall {ECO:0000250}. Note=Released
CC       into the medium. {ECO:0000250}.
CC   -!- SIMILARITY: Belongs to the RHS/WapA nuclease family. {ECO:0000305}.
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DR   EMBL; AP011541; BAI87617.2; -; Genomic_DNA.
DR   AlphaFoldDB; D4G3R4; -.
DR   SMR; D4G3R4; -.
DR   STRING; 86029.AWV81_20955; -.
DR   PRIDE; D4G3R4; -.
DR   EnsemblBacteria; BAI87617; BAI87617; BSNT_10605.
DR   KEGG; bso:BSNT_10605; -.
DR   HOGENOM; CLU_001086_0_0_9; -.
DR   Proteomes; UP000006805; Chromosome.
DR   GO; GO:0005576; C:extracellular region; IEA:UniProtKB-KW.
DR   GO; GO:0004519; F:endonuclease activity; IEA:UniProtKB-KW.
DR   GO; GO:0090729; F:toxin activity; IEA:UniProtKB-KW.
DR   GO; GO:0004549; F:tRNA-specific ribonuclease activity; IDA:UniProtKB.
DR   GO; GO:0016078; P:tRNA catabolic process; IDA:UniProtKB.
DR   Gene3D; 2.60.40.10; -; 1.
DR   InterPro; IPR045351; DUF6531.
DR   InterPro; IPR008979; Galactose-bd-like_sf.
DR   InterPro; IPR013783; Ig-like_fold.
DR   InterPro; IPR022385; Rhs_assc_core.
DR   InterPro; IPR031325; RHS_repeat.
DR   InterPro; IPR006530; YD.
DR   Pfam; PF20148; DUF6531; 1.
DR   Pfam; PF05593; RHS_repeat; 2.
DR   SUPFAM; SSF49785; SSF49785; 1.
DR   TIGRFAMs; TIGR03696; Rhs_assc_core; 1.
DR   TIGRFAMs; TIGR01643; YD_repeat_2x; 5.
PE   1: Evidence at protein level;
KW   Cell wall; Endonuclease; Hydrolase; Nuclease; Repeat; Secreted; Signal;
KW   Toxin; Virulence.
FT   SIGNAL          1..45
FT                   /evidence="ECO:0000255"
FT   CHAIN           46..2347
FT                   /note="tRNA(Glu)-specific nuclease WapA"
FT                   /id="PRO_0000423975"
FT   REPEAT          1045..1078
FT                   /note="YD 1"
FT   REPEAT          1088..1116
FT                   /note="YD 2"
FT   REPEAT          1649..1684
FT                   /note="YD 3"
FT   REPEAT          1691..1729
FT                   /note="YD 4"
FT   REPEAT          2095..2126
FT                   /note="YD 5"
FT   REGION          50..72
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ   SEQUENCE   2347 AA;  261111 MW;  A1DFC8BB70BDFDDE CRC64;
     MSEYYFYYKR REKMKKRKRR NFKRFIAAFL VLALIISLVP ADVLAKTTEE ENGNRIVADD
     PEETLQKEQT EEAVPFDPKD INKEGEITSE RTENTKLYYE GDGVYKQEVY LDPIHTKETP
     DADWEDISPE LKESTSKQVE TENAILNSDF QKQMKNGLYA TFEHNDHKVT YSLVEAKAPN
     KTSLTPKDTS ADYKTDSNEI VYPDVFPNID LQTFTFNENI KEDLVLHQYD GYNTFTFQLK
     TDLQAKEQED GSIDFSDEKG KVVFSVPKPF MTDSKLDELS GEVERSDKVS YKLEKNEEGY
     LLHLTADENW LKDPERVYPV SIDPSTSLSV SSDTFVMSAY PTTNYSASSQ KWDANLKAYV
     LKTGYYDKTT GTNYAFMKFN NLKPIQNMTV TKATLKTYVA HSYYGTKATG LWLDTVNSNY
     DNAKVTWNTK PASKNIGKAD VHKGQWASYD VTAAVKSWNS GGANYGFKLH TNGNGKEYWK
     KLISSANSAN KPYIEVTYTI PKGNTPTIKA YHNGDSTGYF DISWKKVEGA KGYKVWIYNG
     KEYQAISAGN VTSWSTKGKK IWPTSAEIAS KRYKLHLDGK DGAELALDPS PVYKNSGGSY
     ATSKNYWIGV SAIFDQGEGA MSAPAKPVIP NVGKAQAPSA KGYNNGNATG YFDLSWKAVS
     GATGYKVQVF NGKGFETLDL GNQTSWTTKG KKIWPTSAEI KAGKYALHLK DGSGAELPIN
     PGPTYKNAGG DGAKKNYSFK IIAYNKDGEA IASPAANPAL PDIARPKNLT GYLYTNTKSS
     QTGYVNLIWE KVQNAKGYKV NIYNGKEYQS FDVGDADHWT TQNKNIWPTS EEIKAGSYKL
     HTDGKGGELA LDPSPVYNNA NGNYKGKKNY SFTLVAYDAN GETIPTAPFN PTFHEGAEFL
     GTEEYWSIID IPSGQLNGAT GNVIVNEEDL SIDGRGPGLG LSRTYNSLDS SDHLFGQGWY
     ADAETSVIST DGGAMYIDED ATTHRFTKKA DGTYQPPTGV YLELTETADQ FILKTKDQTN
     AYFNKKGGKL QKVVDGHNNA TVYTYNDKNQ LTAITDASGR KLTFTYDENG HVTSITGPKN
     KKVTYSYEND LLKKVTDTDG TVTSYDYDGE GRLVKQYSAN STEAKPVFTE YQYSGHRLEK
     AINAKKETYV YSYDADKKTL LMTQPNGRKV QYGYNEAGNP IQVIDDAEGL KITTNTKYEG
     NNVVEDVDPN DVGTGKATES YQYDKDGNVT SVKDAYGTET YEYNKNNDVT KMKDTEGNVT
     DIAYDGLDAV SETDQSGKSS SAAVYDKYGN QIQSSKDLSA STNILKDGSF EAQKSGWNLT
     ASKDSGKISI ITDKSGVLSG SKALEILSQS TSAGTDHGFS SATQTVELEP NTTYTLSGKI
     KTDLAKTRAY FNIDLRDKDQ KRIQWIHNEY SALAGKNDWT KRQITFTTPA NAGKAVVYME
     VDHNDKDGKG KAWFDEVQLE KGEVSSSYNP VQNSSFTSAT ENWNVSGASV DSEEGFNDDV
     SLKAARTSAS QAGSVTKQTV VLGQSANDKP VYLTLTGMSK ASSVKFTDEK DYSLQANVTY
     ADGSTGVYNA KFPSGTQEWN RAAVVIPKTK PINKVDISIL FQKSATGTVW FDDIRLIEGS
     LLTKSTYDSN GNYVTKEEDE LGYATSTDYD ETGKKTAETD AKGEKTTYTY DQADQLTNMT
     LSNGTSILHS YDKEGNEVSK TIRAGADQTY KYEYDVMGKL VKTTDPLGNV LASEYDANSN
     LTKTISPNGN EVSLSYDGTD RVKSKSYNGT EKYNFTYDKN GNETSVVNKE QNTTKKRTFD
     NKNRLTELTD RGGSQTWTYP SDSDKLKTFS WTHGDQKGTN QFTYNKLDQM IEMKDSTSSY
     SFDYDENGNV QTFITGNGGG TSFSYDERNL VSSLHIGDKN GGSILTESYE YDANGNRTTI
     NSSASGKVKY EYGKLNQLVK ETHEDGTVIE YTYDGFGNRK TVTTVKDGSS KTVNASFNIM
     NQLTKVNDES ISYDKNGNRT SDGKFTYTWD AEDNLTAVTK KGEDKPFATY KYDEKGNRIQ
     KTVNGKVTNY FYDGDSLNVL YETDADNNVT KSYTYGDSGQ LLSYTENGKK YFYHYNAHGD
     VIAISDSTGK TVAKYQYDAW GNPTKTEASD EVKDNRYRYA GYQYDEETGL YYLMARYYEP
     RNGVFLSLDP DPGSDGDSLD QNGYTYGNNN PVMNVDPDGH WVWFVVNAGF AVYDGYKAYK
     SGKGWKGVAV AAASGFVGGG KLKLTKKIGK WATSRHWYKG TFKTKRKSLD YHHNKHIVRN
     GKSYSKKRYT KVARAFYRSN KHLREKVILA TGKKGYRIKN GKRTGYYTRS GKVVTFVNNK
     WKKKKKR