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HAMAP rule MF_01010

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General rule information [?]

Accession MF_01010
Dates 25-MAR-2002 (Created)
1-JUN-2023 (Last updated, Version 33)
Name 23SrRNA_methyltr_RlmD
Scope(s) Bacteria
Template(s) P55135 (RLMD_ECOLI); [ Recover all ]
Triggered by HAMAP; MF_01010 (Get profile general information and statistics)

Propagated annotation [?]

Identifier, protein and gene names [?]

Identifier RLMD
Protein name RecName: Full=23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD;
AltName: Full=23S rRNA(m5U1939)-methyltransferase;
Gene name Name=rlmD;

Comments [?]

FUNCTIONCatalyzes the formation of 5-methyl-uridine at position 1939 (m5U1939) in 23S rRNA.
CATALYTIC ACTIVITY Reaction=S-adenosyl-L-methionine + uridine(1939) in 23S rRNA = 5- methyluridine(1939) in 23S rRNA + H(+) + S-adenosyl-L-homocysteine; Xref=Rhea:RHEA:42908, Rhea:RHEA-COMP:10278, Rhea:RHEA-COMP:10279, ChEBI:CHEBI:15378, ChEBI:CHEBI:57856, ChEBI:CHEBI:59789, ChEBI:CHEBI:65315, ChEBI:CHEBI:74447; EC=;
SIMILARITYBelongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. RlmD subfamily.

Keywords [?]

Gene Ontology [?]

GO:0070041; Molecular function:rRNA (uridine-C5-)-methyltransferase activity
case <FTGroup:1>
GO:0005506; Molecular function:iron ion binding
end case
GO:0031167; Biological process:rRNA methylation

Cross-references [?]

Pfam PF01938; TRAM; 1;
Pfam PF05958; tRNA_U5-meth_tr; 1;
NCBIfam TIGR00479; RumA; 1;
PROSITE PS50926; TRAM; 0-1;
PROSITE PS01230; TRMA_1; 1;
PROSITE PS01231; TRMA_2; 1;

Features [?]

From: RLMD_ECOLI (P55135)
Key From To Description Tag Condition FTGroup
ACT_SITE 389 389 /note="Nucleophile" C
BINDING 81 81 /ligand="[4Fe-4S] cluster"
C 1
BINDING 87 87 /ligand="[4Fe-4S] cluster"
C 1
BINDING 90 90 /ligand="[4Fe-4S] cluster"
C 1
BINDING 162 162 /ligand="[4Fe-4S] cluster"
C 1
BINDING 265 265 /ligand="S-adenosyl-L-methionine"
BINDING 294 294 /ligand="S-adenosyl-L-methionine"
BINDING 299 299 /ligand="S-adenosyl-L-methionine"
BINDING 315 315 /ligand="S-adenosyl-L-methionine"
BINDING 342 342 /ligand="S-adenosyl-L-methionine"
BINDING 363 363 /ligand="S-adenosyl-L-methionine"

Additional information [?]

Size range 431-514 amino acids
Related rules MF_01011
Fusion Nter: None Cter: None

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