Research workbench
Crystal structure of antibiotic related methyltransferase
Analyse Crystal structure of antibiotic related methyltransferase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3LCU
- Type
- protein
- Length
- 260 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sisomicin-gentamicin resistance methylase sgm
- UniProt
- Q7M0R2
- Ligands
- SAH
- Pockets
- 4 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 49% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sisomicin-gentamicin resistance methylase sgm | protein | 260 | 49% helix, 15% strand | Q7M0R2 |
Ligands and binding sites
- SAH · S-adenosyl-L-homocysteine · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 204 | 0.72 | 0.88 | 39 | SAH |
| 2 | 61 | 0.43 | 0.82 | 17 | empty |
| 3 | 66 | 0.31 | 0.75 | 13 | empty |
| 4 | 57 | 0.28 | 0.74 | 15 | empty |
Modifications
Observed in the structure: 3 modified (engineered).
Compared structures
- 3LCU · Crystal Structure of Antibiotic related Methyltransferase · the same entry in another collection · chain A against A, TM-score 1.00
- Q7M0R2 · AlphaFold monomer V2.0 prediction for 16S rRNA (GUANINE(1405)-N(7))-methyltransferase… · a predicted model of the same protein · chain A against A, TM-score 0.98
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 Q7M0R2
- Elsewhere: RCSB PDB 3LCU · PDBe 3LCU · UniProt Q7M0R2
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