A0A9E2XPT0 · A0A9E2XPT0_9BURK
- Protein23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD
- GenerlmD
- StatusUniProtKB unreviewed (TrEMBL)
- Organism
- Amino acids452 (go to sequence)
- Protein existenceInferred from homology
- Annotation score2/5
Function
function
Catalyzes the formation of 5-methyl-uridine at position 1939 (m5U1939) in 23S rRNA.
Catalytic activity
- uridine1939 in 23S rRNA + S-adenosyl-L-methionine = 5-methyluridine1939 in 23S rRNA + S-adenosyl-L-homocysteine + H+
Features
Showing features for binding site, active site.
Type | ID | Position(s) | Description | ||
---|---|---|---|---|---|
Binding site | 71 | [4Fe-4S] cluster (UniProtKB | ChEBI) | |||
Binding site | 81 | [4Fe-4S] cluster (UniProtKB | ChEBI) | |||
Binding site | 84 | [4Fe-4S] cluster (UniProtKB | ChEBI) | |||
Binding site | 163 | [4Fe-4S] cluster (UniProtKB | ChEBI) | |||
Binding site | 271 | S-adenosyl-L-methionine (UniProtKB | ChEBI) | |||
Binding site | 300 | S-adenosyl-L-methionine (UniProtKB | ChEBI) | |||
Binding site | 305 | S-adenosyl-L-methionine (UniProtKB | ChEBI) | |||
Binding site | 321 | S-adenosyl-L-methionine (UniProtKB | ChEBI) | |||
Binding site | 349 | S-adenosyl-L-methionine (UniProtKB | ChEBI) | |||
Binding site | 370 | S-adenosyl-L-methionine (UniProtKB | ChEBI) | |||
Active site | 407 | Nucleophile | |||
GO annotations
Aspect | Term | |
---|---|---|
Molecular Function | 4 iron, 4 sulfur cluster binding | |
Molecular Function | iron ion binding | |
Molecular Function | RNA binding | |
Molecular Function | rRNA (uridine-C5-)-methyltransferase activity | |
Biological Process | rRNA base methylation |
Keywords
- Molecular function
- Biological process
- Ligand
Enzyme and pathway databases
Names & Taxonomy
Protein names
- Recommended name23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD
- EC number
- Alternative names
Gene names
Organism names
- Organism
- Strain
- Taxonomic lineageBacteria > Pseudomonadota > Betaproteobacteria > Burkholderiales > Sphaerotilaceae > Roseateles
Accessions
- Primary accessionA0A9E2XPT0
Proteomes
Structure
Family & Domains
Features
Showing features for domain.
Type | ID | Position(s) | Description | ||
---|---|---|---|---|---|
Domain | 1-58 | TRAM | |||
Sequence similarities
Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. RlmD subfamily.
Family and domain databases
Sequence
- Sequence statusComplete
- Length452
- Mass (Da)49,912
- Last updated2023-05-03 v1
- Checksum4C4D932798AF7D09
Sequence databases
Nucleotide Sequence | Protein Sequence | Molecule Type | Status | |
---|---|---|---|---|
JAFALK010000024 EMBL· GenBank· DDBJ | MBV8501243.1 EMBL· GenBank· DDBJ | Genomic DNA |