ID A0A1Y5T4L8_9RHOB Unreviewed; 405 AA.
AC A0A1Y5T4L8;
DT 30-AUG-2017, integrated into UniProtKB/TrEMBL.
DT 30-AUG-2017, sequence version 1.
DT 27-MAR-2024, entry version 18.
DE SubName: Full=23S rRNA (Uracil(1939)-C(5))-methyltransferase RlmD {ECO:0000313|EMBL:SLN52236.1};
DE EC=2.1.1.190 {ECO:0000313|EMBL:SLN52236.1};
GN Name=rlmD {ECO:0000313|EMBL:SLN52236.1};
GN ORFNames=PAM7971_02629 {ECO:0000313|EMBL:SLN52236.1};
OS Pacificibacter marinus.
OC Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales;
OC Roseobacteraceae; Pacificibacter.
OX NCBI_TaxID=658057 {ECO:0000313|EMBL:SLN52236.1, ECO:0000313|Proteomes:UP000193307};
RN [1] {ECO:0000313|EMBL:SLN52236.1, ECO:0000313|Proteomes:UP000193307}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=CECT 7971 {ECO:0000313|EMBL:SLN52236.1,
RC ECO:0000313|Proteomes:UP000193307};
RA Afonso C.L., Miller P.J., Scott M.A., Spackman E., Goraichik I.,
RA Dimitrov K.M., Suarez D.L., Swayne D.E.;
RL Submitted (MAR-2017) to the EMBL/GenBank/DDBJ databases.
CC -!- SIMILARITY: Belongs to the class I-like SAM-binding methyltransferase
CC superfamily. RNA M5U methyltransferase family. {ECO:0000256|PROSITE-
CC ProRule:PRU01024}.
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DR EMBL; FWFW01000008; SLN52236.1; -; Genomic_DNA.
DR AlphaFoldDB; A0A1Y5T4L8; -.
DR STRING; 658057.SAMN04488032_11029; -.
DR OrthoDB; 9804590at2; -.
DR Proteomes; UP000193307; Unassembled WGS sequence.
DR GO; GO:0008173; F:RNA methyltransferase activity; IEA:InterPro.
DR GO; GO:0032259; P:methylation; IEA:UniProtKB-KW.
DR GO; GO:0006396; P:RNA processing; IEA:InterPro.
DR CDD; cd02440; AdoMet_MTases; 1.
DR Gene3D; 2.40.50.1070; -; 1.
DR Gene3D; 2.40.50.140; Nucleic acid-binding proteins; 1.
DR Gene3D; 3.40.50.150; Vaccinia Virus protein VP39; 1.
DR InterPro; IPR012340; NA-bd_OB-fold.
DR InterPro; IPR029063; SAM-dependent_MTases_sf.
DR InterPro; IPR010280; U5_MeTrfase_fam.
DR PANTHER; PTHR11061; RNA M5U METHYLTRANSFERASE; 1.
DR PANTHER; PTHR11061:SF30; TRNA (URACIL(54)-C(5))-METHYLTRANSFERASE; 1.
DR Pfam; PF05958; tRNA_U5-meth_tr; 1.
DR SUPFAM; SSF53335; S-adenosyl-L-methionine-dependent methyltransferases; 1.
DR PROSITE; PS51687; SAM_MT_RNA_M5U; 1.
PE 3: Inferred from homology;
KW Methyltransferase {ECO:0000256|ARBA:ARBA00022603, ECO:0000256|PROSITE-
KW ProRule:PRU01024}; Reference proteome {ECO:0000313|Proteomes:UP000193307};
KW S-adenosyl-L-methionine {ECO:0000256|ARBA:ARBA00022691,
KW ECO:0000256|PROSITE-ProRule:PRU01024};
KW Transferase {ECO:0000256|ARBA:ARBA00022679, ECO:0000256|PROSITE-
KW ProRule:PRU01024}.
FT ACT_SITE 362
FT /note="Nucleophile"
FT /evidence="ECO:0000256|PROSITE-ProRule:PRU01024"
FT BINDING 241
FT /ligand="S-adenosyl-L-methionine"
FT /ligand_id="ChEBI:CHEBI:59789"
FT /evidence="ECO:0000256|PROSITE-ProRule:PRU01024"
FT BINDING 268
FT /ligand="S-adenosyl-L-methionine"
FT /ligand_id="ChEBI:CHEBI:59789"
FT /evidence="ECO:0000256|PROSITE-ProRule:PRU01024"
FT BINDING 288
FT /ligand="S-adenosyl-L-methionine"
FT /ligand_id="ChEBI:CHEBI:59789"
FT /evidence="ECO:0000256|PROSITE-ProRule:PRU01024"
FT BINDING 336
FT /ligand="S-adenosyl-L-methionine"
FT /ligand_id="ChEBI:CHEBI:59789"
FT /evidence="ECO:0000256|PROSITE-ProRule:PRU01024"
SQ SEQUENCE 405 AA; 43767 MW; EDA319C57C1BAC7B CRC64;
MTQIEITRLG HHGDGIADGP IFAAKTLPGE IVEGSITGDR MIDPRIVSPS PNRVRPPCVH
FKACGGCALQ HASDDFVATW KADVVRTALS HQGVNVPVSR IVTSPARSRR RAVFAGRRTK
KGVLVGLHGR ASGTLVAIPE CILMTPKIMQ AMPAFEALVH AGGSRRGEMA ITVTDTDAGL
DVSVIEAKPL DLDLRTELAS VVRQYGLIRL SWNGDEVAQE TRPYLNFGRA RLVPPPGAFL
QATKHGEMAL VALMKEAVFG AGRVVDLFSG CGTFALPLSE VAEVHAVESE AMMLQSLSAA
WKTAPGLKVV TTQARDLFRQ PLLPDELKRF DAAIIDPPRA GALAQTGELA KSNLRSIGFV
SCNPVTFARD AKILVDSGFQ IDWIKVVDQF RWSPHVEIAA RFYRT
//
