Research workbench
Ribosomal protein L11 methyltransferase (prma) in complex with ribosomal protein L11 (K39A) and inhibitor sinefungin.
Analyse Ribosomal protein L11 methyltransferase (prma) in complex with ribosomal… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3CJR
- Type
- protein
- Length
- 367 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ribosomal protein L11 methyltransferase; 50S ribosomal protein L11
- EC
- 2.1.1.-
- UniProt
- Q84BQ9, P36238
- Ligands
- SFG
- Pockets
- 2 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 34% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ribosomal protein L11 methyltransferase (EC 2.1.1.-) | protein | 249 | 34% helix, 32% strand | Q84BQ9 |
| B | 50S ribosomal protein L11 | protein | 118 | 35% helix, 20% strand | P36238 |
Ligands and binding sites
- SFG · Sinefungin · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 632 | 0.71 | 0.79 | 60 | SFG |
| 2 | 211 | 0.57 | 0.79 | 27 | empty |
Interfaces
1 interface between chains.
- A–B · 1228 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 3CJR · Ribosomal protein L11 methyltransferase (PrmA) in complex with ribosomal protein L11… · the same entry in another collection · chain A against A, TM-score 1.00
- P36238 · AlphaFold monomer V2.0 prediction for 50S ribosomal protein L11 (P36238) · a predicted model of the same protein · chain B against A, TM-score 0.90
- Q84BQ9 · AlphaFold monomer V2.0 prediction for ribosomal protein L11 methyltransferase (Q84BQ9) · a predicted model of the same protein · chain A against A, TM-score 0.79
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt Q84BQ9
- Every structure of UniProt P36238
- Elsewhere: RCSB PDB 3CJR · PDBe 3CJR · UniProt Q84BQ9 · UniProt P36238
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