A0A1E4ND62 · A0A1E4ND62_9PROT
- Protein23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD
- GenerlmD
- StatusUniProtKB unreviewed (TrEMBL)
- Organism
- Amino acids432 (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 | 67 | [4Fe-4S] cluster (UniProtKB | ChEBI) | ||||
Sequence: C | ||||||
Binding site | 73 | [4Fe-4S] cluster (UniProtKB | ChEBI) | ||||
Sequence: C | ||||||
Binding site | 76 | [4Fe-4S] cluster (UniProtKB | ChEBI) | ||||
Sequence: C | ||||||
Binding site | 155 | [4Fe-4S] cluster (UniProtKB | ChEBI) | ||||
Sequence: C | ||||||
Binding site | 264 | S-adenosyl-L-methionine (UniProtKB | ChEBI) | ||||
Sequence: Q | ||||||
Binding site | 293 | S-adenosyl-L-methionine (UniProtKB | ChEBI) | ||||
Sequence: F | ||||||
Binding site | 298 | S-adenosyl-L-methionine (UniProtKB | ChEBI) | ||||
Sequence: N | ||||||
Binding site | 314 | S-adenosyl-L-methionine (UniProtKB | ChEBI) | ||||
Sequence: E | ||||||
Binding site | 341 | S-adenosyl-L-methionine (UniProtKB | ChEBI) | ||||
Sequence: N | ||||||
Binding site | 362 | S-adenosyl-L-methionine (UniProtKB | ChEBI) | ||||
Sequence: D | ||||||
Active site | 389 | |||||
Sequence: C | ||||||
Active site | 389 | Nucleophile | ||||
Sequence: C |
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
- Taxonomic lineageBacteria > Pseudomonadota > Betaproteobacteria > Nitrosomonadales > Thiobacillaceae > Thiobacillus
Accessions
- Primary accessionA0A1E4ND62
Proteomes
Interaction
Protein-protein interaction databases
Structure
Family & Domains
Features
Showing features for domain.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Domain | 1-54 | TRAM | ||||
Sequence: MSPVVDILSLDHEGHGVARIDGKVTFVDGALAGERAEIAVYRKHAKYNSANAVG |
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
- Length432
- Mass (Da)47,522
- Last updated2017-01-18 v1
- ChecksumBFE44D677839D308