MolNFT v1 · #58590 · protein
Crystal structure of rRNA methylase from escherichia COLI
3B89 · 16S rRNA methylase: “Crystal structure of rRNA methylase from escherichia COLI”. X-ray diffraction, 1 ligand (5GP), 3 pockets (best druggability 0.72). MolNFT v1 #58590 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 3B89
- Type
- protein
- Length
- 240 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 16S rRNA methylase
- UniProt
- Q763K9
- Ligands
- 5GP
- Pockets
- 3 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 42% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 16S rRNA methylase | protein | 240 | 42% helix, 20% strand | Q763K9 |
Ligands and binding sites
- 5GP · Guanosine-5'-monophosphate · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 415 | 0.72 | 0.82 | 54 | 5GP |
| 2 | 60 | 0.45 | 0.83 | 18 | empty |
| 3 | 84 | 0.43 | 0.80 | 15 | empty |
Modifications
Observed in the structure: 2 modified (engineered).
Compared structures
- 3B89 · Crystal structure of rRNA methylase from Escherichia coli · the same entry in another collection · chain A against A, TM-score 1.00
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 Q763K9
- Elsewhere: RCSB PDB 3B89 · PDBe 3B89 · UniProt Q763K9
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