YLYB_BACSU
ID YLYB_BACSU Reviewed; 303 AA.
AC Q45480; O31732;
DT 01-NOV-1997, integrated into UniProtKB/Swiss-Prot.
DT 28-JUL-2009, sequence version 3.
DT 03-AUG-2022, entry version 131.
DE RecName: Full=Uncharacterized RNA pseudouridine synthase YlyB;
DE EC=5.4.99.-;
DE AltName: Full=RNA pseudouridylate synthase;
DE AltName: Full=RNA-uridine isomerase;
GN Name=ylyB; Synonyms=ylmL; OrderedLocusNames=BSU15460;
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;
RA Pragai Z., Tjalsma H., Bolhuis A., van Dijl J.M., Venema G., Bron S.;
RL Submitted (FEB-1996) to the EMBL/GenBank/DDBJ databases.
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 SEQUENCE REVISION.
RX PubMed=10568751; DOI=10.1101/gr.9.11.1116;
RA Medigue C., Rose M., Viari A., Danchin A.;
RT "Detecting and analyzing DNA sequencing errors: toward a higher quality of
RT the Bacillus subtilis genome sequence.";
RL Genome Res. 9:1116-1127(1999).
RN [4]
RP SEQUENCE REVISION TO 217 AND 265.
RX PubMed=19383706; DOI=10.1099/mic.0.027839-0;
RA Barbe V., Cruveiller S., Kunst F., Lenoble P., Meurice G., Sekowska A.,
RA Vallenet D., Wang T., Moszer I., Medigue C., Danchin A.;
RT "From a consortium sequence to a unified sequence: the Bacillus subtilis
RT 168 reference genome a decade later.";
RL Microbiology 155:1758-1775(2009).
RN [5]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 137-303.
RX PubMed=1709162; DOI=10.1016/s0021-9258(18)31559-x;
RA Quinn C.L., Stephenson B.T., Switzer R.L.;
RT "Functional organization and nucleotide sequence of the Bacillus subtilis
RT pyrimidine biosynthetic operon.";
RL J. Biol. Chem. 266:9113-9127(1991).
CC -!- CATALYTIC ACTIVITY:
CC Reaction=a uridine in RNA = a pseudouridine in RNA;
CC Xref=Rhea:RHEA:48348, Rhea:RHEA-COMP:12068, Rhea:RHEA-COMP:12069,
CC ChEBI:CHEBI:65314, ChEBI:CHEBI:65315;
CC -!- SIMILARITY: Belongs to the pseudouridine synthase RluA family.
CC {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=M59757; Type=Frameshift; Evidence={ECO:0000305};
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DR EMBL; U48870; AAB57767.1; -; Genomic_DNA.
DR EMBL; AL009126; CAB13420.3; -; Genomic_DNA.
DR EMBL; M59757; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR PIR; B69883; B69883.
DR RefSeq; NP_389429.3; NC_000964.3.
DR RefSeq; WP_003245307.1; NZ_CP053102.1.
DR AlphaFoldDB; Q45480; -.
DR SMR; Q45480; -.
DR STRING; 224308.BSU15460; -.
DR jPOST; Q45480; -.
DR PaxDb; Q45480; -.
DR PRIDE; Q45480; -.
DR EnsemblBacteria; CAB13420; CAB13420; BSU_15460.
DR GeneID; 939987; -.
DR KEGG; bsu:BSU15460; -.
DR PATRIC; fig|224308.179.peg.1685; -.
DR eggNOG; COG0564; Bacteria.
DR InParanoid; Q45480; -.
DR OMA; AHPSPGW; -.
DR BioCyc; BSUB:BSU15460-MON; -.
DR Proteomes; UP000001570; Chromosome.
DR GO; GO:0009982; F:pseudouridine synthase activity; IBA:GO_Central.
DR GO; GO:0003723; F:RNA binding; IEA:UniProtKB-KW.
DR GO; GO:0120159; F:rRNA pseudouridine synthase activity; IEA:UniProt.
DR GO; GO:0000455; P:enzyme-directed rRNA pseudouridine synthesis; IBA:GO_Central.
DR CDD; cd02869; PseudoU_synth_RluA_like; 1.
DR CDD; cd00165; S4; 1.
DR Gene3D; 3.10.290.10; -; 1.
DR InterPro; IPR020103; PsdUridine_synth_cat_dom_sf.
DR InterPro; IPR006225; PsdUridine_synth_RluC/D.
DR InterPro; IPR006224; PsdUridine_synth_RluC/D_CS.
DR InterPro; IPR006145; PsdUridine_synth_RsuA/RluA.
DR InterPro; IPR002942; S4_RNA-bd.
DR InterPro; IPR036986; S4_RNA-bd_sf.
DR Pfam; PF00849; PseudoU_synth_2; 1.
DR Pfam; PF01479; S4; 1.
DR SMART; SM00363; S4; 1.
DR SUPFAM; SSF55120; SSF55120; 1.
DR TIGRFAMs; TIGR00005; rluA_subfam; 1.
DR PROSITE; PS01129; PSI_RLU; 1.
DR PROSITE; PS50889; S4; 1.
PE 3: Inferred from homology;
KW Isomerase; Reference proteome; RNA-binding.
FT CHAIN 1..303
FT /note="Uncharacterized RNA pseudouridine synthase YlyB"
FT /id="PRO_0000162730"
FT DOMAIN 15..74
FT /note="S4 RNA-binding"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00182"
FT ACT_SITE 138
FT /evidence="ECO:0000250"
FT CONFLICT 217
FT /note="R -> G (in Ref. 5; M59757)"
FT /evidence="ECO:0000305"
FT CONFLICT 265
FT /note="A -> P (in Ref. 5; M59757)"
FT /evidence="ECO:0000305"
FT CONFLICT 287
FT /note="P -> S (in Ref. 5; M59757)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 303 AA; 33726 MW; 551E9D312337AE30 CRC64;
MNQIDITASE EQKSERIDKF LASTENDWSR TQVQQWVKDG QVVVNGSAVK ANYKIQPGDQ
VTVTVPEPEA LDVLAEPMDL DIYYEDQDVL VVNKPRGMVV HPAPGHLTGT LVNGLMAHCT
DLSGINGVMR PGIVHRIDKD TSGLLMVAKN DMAHESLVNQ LVNKTVTRKY TAVVHGLISH
DDGTIDAPIG RDKKDRQSMT VTRDGKNAVT HFHVLERFQD FTLVECQLET GRTHQIRVHM
KYIGFPLAGD PKYGPRKTID FNGQALHAGV LGFDHPRTGE YVEFEAPLPE DMAELIENLR
KNG
