TRMD_MYCTU
ID TRMD_MYCTU Reviewed; 230 AA.
AC P9WFY7; L0TDQ6; P66968; Q10797;
DT 16-APR-2014, integrated into UniProtKB/Swiss-Prot.
DT 16-APR-2014, sequence version 1.
DT 03-AUG-2022, entry version 43.
DE RecName: Full=tRNA (guanine-N(1)-)-methyltransferase;
DE EC=2.1.1.228;
DE AltName: Full=M1G-methyltransferase;
DE AltName: Full=tRNA [GM37] methyltransferase;
GN Name=trmD; OrderedLocusNames=Rv2906c; ORFNames=MTCY274.37c;
OS Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv).
OC Bacteria; Actinobacteria; Corynebacteriales; Mycobacteriaceae;
OC Mycobacterium; Mycobacterium tuberculosis complex.
OX NCBI_TaxID=83332;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=ATCC 25618 / H37Rv;
RX PubMed=9634230; DOI=10.1038/31159;
RA Cole S.T., Brosch R., Parkhill J., Garnier T., Churcher C.M., Harris D.E.,
RA Gordon S.V., Eiglmeier K., Gas S., Barry C.E. III, Tekaia F., Badcock K.,
RA Basham D., Brown D., Chillingworth T., Connor R., Davies R.M., Devlin K.,
RA Feltwell T., Gentles S., Hamlin N., Holroyd S., Hornsby T., Jagels K.,
RA Krogh A., McLean J., Moule S., Murphy L.D., Oliver S., Osborne J.,
RA Quail M.A., Rajandream M.A., Rogers J., Rutter S., Seeger K., Skelton S.,
RA Squares S., Squares R., Sulston J.E., Taylor K., Whitehead S.,
RA Barrell B.G.;
RT "Deciphering the biology of Mycobacterium tuberculosis from the complete
RT genome sequence.";
RL Nature 393:537-544(1998).
RN [2]
RP IDENTIFICATION AS A DRUG TARGET [LARGE SCALE ANALYSIS].
RX PubMed=19099550; DOI=10.1186/1752-0509-2-109;
RA Raman K., Yeturu K., Chandra N.;
RT "targetTB: a target identification pipeline for Mycobacterium tuberculosis
RT through an interactome, reactome and genome-scale structural analysis.";
RL BMC Syst. Biol. 2:109-109(2008).
RN [3]
RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RC STRAIN=ATCC 25618 / H37Rv;
RX PubMed=21969609; DOI=10.1074/mcp.m111.011627;
RA Kelkar D.S., Kumar D., Kumar P., Balakrishnan L., Muthusamy B., Yadav A.K.,
RA Shrivastava P., Marimuthu A., Anand S., Sundaram H., Kingsbury R.,
RA Harsha H.C., Nair B., Prasad T.S., Chauhan D.S., Katoch K., Katoch V.M.,
RA Kumar P., Chaerkady R., Ramachandran S., Dash D., Pandey A.;
RT "Proteogenomic analysis of Mycobacterium tuberculosis by high resolution
RT mass spectrometry.";
RL Mol. Cell. Proteomics 10:M111.011627-M111.011627(2011).
CC -!- FUNCTION: Specifically methylates guanosine-37 in various tRNAs.
CC {ECO:0000250}.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=guanosine(37) in tRNA + S-adenosyl-L-methionine = H(+) + N(1)-
CC methylguanosine(37) in tRNA + S-adenosyl-L-homocysteine;
CC Xref=Rhea:RHEA:36899, Rhea:RHEA-COMP:10145, Rhea:RHEA-COMP:10147,
CC ChEBI:CHEBI:15378, ChEBI:CHEBI:57856, ChEBI:CHEBI:59789,
CC ChEBI:CHEBI:73542, ChEBI:CHEBI:74269; EC=2.1.1.228;
CC -!- SUBUNIT: Homodimer. {ECO:0000250}.
CC -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000305}.
CC -!- MISCELLANEOUS: Was identified as a high-confidence drug target.
CC -!- SIMILARITY: Belongs to the RNA methyltransferase TrmD family.
CC {ECO:0000305}.
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DR EMBL; AL123456; CCP45708.1; -; Genomic_DNA.
DR PIR; E70927; E70927.
DR RefSeq; NP_217422.1; NC_000962.3.
DR RefSeq; WP_003414722.1; NZ_NVQJ01000006.1.
DR PDB; 5ZHJ; X-ray; 1.75 A; A=1-230.
DR PDB; 5ZHK; X-ray; 2.30 A; A=1-230.
DR PDB; 5ZHL; X-ray; 2.25 A; A=1-230.
DR PDB; 6JOF; X-ray; 2.20 A; A=1-230.
DR PDBsum; 5ZHJ; -.
DR PDBsum; 5ZHK; -.
DR PDBsum; 5ZHL; -.
DR PDBsum; 6JOF; -.
DR AlphaFoldDB; P9WFY7; -.
DR SMR; P9WFY7; -.
DR STRING; 83332.Rv2906c; -.
DR BindingDB; P9WFY7; -.
DR ChEMBL; CHEMBL4523933; -.
DR PaxDb; P9WFY7; -.
DR DNASU; 888495; -.
DR GeneID; 888495; -.
DR KEGG; mtu:Rv2906c; -.
DR TubercuList; Rv2906c; -.
DR eggNOG; COG0336; Bacteria.
DR OMA; ILCGHYK; -.
DR PhylomeDB; P9WFY7; -.
DR Proteomes; UP000001584; Chromosome.
DR GO; GO:0005829; C:cytosol; IBA:GO_Central.
DR GO; GO:0052906; F:tRNA (guanine(37)-N(1))-methyltransferase activity; IBA:GO_Central.
DR GO; GO:0002939; P:tRNA N1-guanine methylation; IBA:GO_Central.
DR CDD; cd18080; TrmD-like; 1.
DR Gene3D; 1.10.1270.20; -; 1.
DR Gene3D; 3.40.1280.10; -; 1.
DR HAMAP; MF_00605; TrmD; 1.
DR InterPro; IPR029028; Alpha/beta_knot_MTases.
DR InterPro; IPR002649; tRNA_m1G_MeTrfase_bac.
DR InterPro; IPR023148; tRNA_m1G_MeTrfase_C_sf.
DR InterPro; IPR029026; tRNA_m1G_MTases_N.
DR InterPro; IPR016009; tRNA_MeTrfase_TRMD/TRM10.
DR PANTHER; PTHR46417; PTHR46417; 1.
DR Pfam; PF01746; tRNA_m1G_MT; 1.
DR PIRSF; PIRSF000386; tRNA_mtase; 1.
DR SUPFAM; SSF75217; SSF75217; 1.
DR TIGRFAMs; TIGR00088; trmD; 1.
PE 1: Evidence at protein level;
KW 3D-structure; Cytoplasm; Methyltransferase; Reference proteome;
KW S-adenosyl-L-methionine; Transferase; tRNA processing.
FT CHAIN 1..230
FT /note="tRNA (guanine-N(1)-)-methyltransferase"
FT /id="PRO_0000060410"
FT BINDING 109
FT /ligand="S-adenosyl-L-methionine"
FT /ligand_id="ChEBI:CHEBI:59789"
FT /evidence="ECO:0000250"
FT BINDING 133..138
FT /ligand="S-adenosyl-L-methionine"
FT /ligand_id="ChEBI:CHEBI:59789"
FT /evidence="ECO:0000250"
FT STRAND 2..8
FT /evidence="ECO:0007829|PDB:5ZHJ"
FT HELIX 10..17
FT /evidence="ECO:0007829|PDB:5ZHJ"
FT HELIX 19..26
FT /evidence="ECO:0007829|PDB:5ZHJ"
FT STRAND 31..36
FT /evidence="ECO:0007829|PDB:5ZHJ"
FT HELIX 37..40
FT /evidence="ECO:0007829|PDB:5ZHJ"
FT STRAND 43..45
FT /evidence="ECO:0007829|PDB:6JOF"
FT HELIX 63..73
FT /evidence="ECO:0007829|PDB:5ZHJ"
FT STRAND 79..83
FT /evidence="ECO:0007829|PDB:5ZHJ"
FT STRAND 87..89
FT /evidence="ECO:0007829|PDB:5ZHJ"
FT HELIX 92..98
FT /evidence="ECO:0007829|PDB:5ZHJ"
FT STRAND 102..107
FT /evidence="ECO:0007829|PDB:5ZHJ"
FT HELIX 117..122
FT /evidence="ECO:0007829|PDB:5ZHJ"
FT TURN 123..125
FT /evidence="ECO:0007829|PDB:5ZHJ"
FT STRAND 126..136
FT /evidence="ECO:0007829|PDB:5ZHJ"
FT HELIX 142..159
FT /evidence="ECO:0007829|PDB:5ZHJ"
FT STRAND 188..190
FT /evidence="ECO:0007829|PDB:5ZHJ"
FT HELIX 197..200
FT /evidence="ECO:0007829|PDB:5ZHJ"
FT HELIX 204..222
FT /evidence="ECO:0007829|PDB:5ZHJ"
FT HELIX 224..226
FT /evidence="ECO:0007829|PDB:5ZHL"
SQ SEQUENCE 230 AA; 25166 MW; 5981C3D149ED0AC5 CRC64;
MRIDIVTIFP ACLDPLRQSL PGKAIESGLV DLNVHDLRRW THDVHHSVDD APYGGGPGMV
MKAPVWGEAL DEICSSETLL IVPTPAGVLF TQATAQRWTT ESHLVFACGR YEGIDQRVVQ
DAARRMRVEE VSIGDYVLPG GESAAVVMVE AVLRLLAGVL GNPASHQDDS HSTGLDGLLE
GPSYTRPASW RGLDVPEVLL SGDHARIAAW RREVSLQRTR ERRPDLSHPD
