ID   TRUD2_METMP             Reviewed;         390 AA.
AC   Q6LZL0;
DT   26-APR-2005, integrated into UniProtKB/Swiss-Prot.
DT   26-APR-2005, sequence version 2.
DT   25-MAY-2022, entry version 97.
DE   RecName: Full=Probable tRNA pseudouridine synthase D 2 {ECO:0000255|HAMAP-Rule:MF_01082};
DE            EC=5.4.99.27 {ECO:0000255|HAMAP-Rule:MF_01082};
DE   AltName: Full=tRNA pseudouridine(13) synthase {ECO:0000255|HAMAP-Rule:MF_01082};
DE   AltName: Full=tRNA pseudouridylate synthase D 2 {ECO:0000255|HAMAP-Rule:MF_01082};
DE   AltName: Full=tRNA-uridine isomerase D 2 {ECO:0000255|HAMAP-Rule:MF_01082};
GN   Name=truD2 {ECO:0000255|HAMAP-Rule:MF_01082}; OrderedLocusNames=MMP0615;
OS   Methanococcus maripaludis (strain S2 / LL).
OC   Archaea; Euryarchaeota; Methanomada group; Methanococci; Methanococcales;
OC   Methanococcaceae; Methanococcus.
OX   NCBI_TaxID=267377;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=S2 / LL;
RX   PubMed=15466049; DOI=10.1128/jb.186.20.6956-6969.2004;
RA   Hendrickson E.L., Kaul R., Zhou Y., Bovee D., Chapman P., Chung J.,
RA   Conway de Macario E., Dodsworth J.A., Gillett W., Graham D.E., Hackett M.,
RA   Haydock A.K., Kang A., Land M.L., Levy R., Lie T.J., Major T.A.,
RA   Moore B.C., Porat I., Palmeiri A., Rouse G., Saenphimmachak C., Soell D.,
RA   Van Dien S., Wang T., Whitman W.B., Xia Q., Zhang Y., Larimer F.W.,
RA   Olson M.V., Leigh J.A.;
RT   "Complete genome sequence of the genetically tractable hydrogenotrophic
RT   methanogen Methanococcus maripaludis.";
RL   J. Bacteriol. 186:6956-6969(2004).
CC   -!- FUNCTION: Could be responsible for synthesis of pseudouridine from
CC       uracil-13 in transfer RNAs. {ECO:0000255|HAMAP-Rule:MF_01082}.
CC   -!- CATALYTIC ACTIVITY:
CC       Reaction=uridine(13) in tRNA = pseudouridine(13) in tRNA;
CC         Xref=Rhea:RHEA:42540, Rhea:RHEA-COMP:10105, Rhea:RHEA-COMP:10106,
CC         ChEBI:CHEBI:65314, ChEBI:CHEBI:65315; EC=5.4.99.27;
CC         Evidence={ECO:0000255|HAMAP-Rule:MF_01082};
CC   -!- SIMILARITY: Belongs to the pseudouridine synthase TruD family.
CC       {ECO:0000255|HAMAP-Rule:MF_01082}.
CC   -!- SEQUENCE CAUTION:
CC       Sequence=CAF30171.1; Type=Erroneous initiation; Evidence={ECO:0000305};
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DR   EMBL; BX950229; CAF30171.1; ALT_INIT; Genomic_DNA.
DR   RefSeq; WP_011170559.1; NC_005791.1.
DR   AlphaFoldDB; Q6LZL0; -.
DR   SMR; Q6LZL0; -.
DR   STRING; 267377.MMP0615; -.
DR   EnsemblBacteria; CAF30171; CAF30171; MMP0615.
DR   GeneID; 2762160; -.
DR   KEGG; mmp:MMP0615; -.
DR   PATRIC; fig|267377.15.peg.630; -.
DR   eggNOG; arCOG04252; Archaea.
DR   HOGENOM; CLU_005281_4_1_2; -.
DR   OMA; GFPNYFD; -.
DR   OrthoDB; 92795at2157; -.
DR   Proteomes; UP000000590; Chromosome.
DR   GO; GO:0003723; F:RNA binding; IEA:InterPro.
DR   GO; GO:0106029; F:tRNA pseudouridine synthase activity; IEA:UniProtKB-EC.
DR   GO; GO:0031119; P:tRNA pseudouridine synthesis; IEA:UniProtKB-UniRule.
DR   Gene3D; 3.30.2350.20; -; 2.
DR   HAMAP; MF_01082; TruD; 1.
DR   InterPro; IPR020103; PsdUridine_synth_cat_dom_sf.
DR   InterPro; IPR001656; PsdUridine_synth_TruD.
DR   InterPro; IPR020119; PsdUridine_synth_TruD_CS.
DR   InterPro; IPR011760; PsdUridine_synth_TruD_insert.
DR   InterPro; IPR042214; TruD_catalytic.
DR   PANTHER; PTHR13326; PTHR13326; 2.
DR   Pfam; PF01142; TruD; 2.
DR   PIRSF; PIRSF037016; Pseudouridin_synth_euk_prd; 1.
DR   SUPFAM; SSF55120; SSF55120; 1.
DR   TIGRFAMs; TIGR00094; tRNA_TruD_broad; 1.
DR   PROSITE; PS50984; TRUD; 1.
DR   PROSITE; PS01268; UPF0024; 1.
PE   3: Inferred from homology;
KW   Isomerase; Reference proteome; tRNA processing.
FT   CHAIN           1..390
FT                   /note="Probable tRNA pseudouridine synthase D 2"
FT                   /id="PRO_0000152545"
FT   DOMAIN          166..353
FT                   /note="TRUD"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_01082"
FT   ACT_SITE        93
FT                   /note="Nucleophile"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_01082"
SQ   SEQUENCE   390 AA;  45732 MW;  21BA1661FF5BB418 CRC64;
     MPININKFIL DMERFDGTLK KYPEDFIVEE ITPEGTVLEV GKEIGFEDVE KWHGSFIHFT
     VEKTNWNTMD ALKQIVRATK TKRKNFGFAG TKDKFAVTTQ RFGCFGLKKE QLENINIKDI
     VIRDVQKTNK KLRMGGLWGN KFTIKIRDLN LSEKEIKRIS DLKLDYVLNY YGIQRFGLIR
     PITHIVGKFI YERDFESAFY TYCGTPINET GDSLEARQLV DMGEFKKALK LFNRGHDYEK
     RLIQQYLKYK DFKMAFTALP PQLNSMFVNA YQAYLFNEMI NKRFDYGFDE LEGDILEDNT
     PTGTLIGYDT KFSGGIQGEI EKEIVERENL DLKKFKIEDF GNFYGTRRKM VTPIYDFKSR
     FENEIFELSF KLERGNYATI VTREFTGNLS