MolNFT v1 · #116821 · protein
Crystal structure of ubig mutant in complex with sah
5DPM · Ubiquinone biosynthesis O-methyltransferase: “Crystal structure of ubig mutant in complex with sah”. X-ray diffraction, 1 ligand (SAH), 1 pocket (best druggability 0.74). MolNFT v1 #116821 on GenesisL1: 3D structure, binding sites…
- PDB
- 5DPM
- Type
- protein
- Length
- 206 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquinone biosynthesis O-methyltransferase
- EC
- 2.1.1.222, 2.1.1.64
- UniProt
- A8A296
- Ligands
- SAH
- Pockets
- 1 · best druggability 0.74
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubiquinone biosynthesis O-methyltransferase (EC 2.1.1.222, 2.1.1.64) | protein | 206 | 40% helix, 28% strand | A8A296 |
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
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 306 | 0.74 | 0.86 | 46 | SAH |
Compared structures
- 5DPM · Crystal structure of UbiG mutant in complex with SAH · the same entry in another collection · chain A against A, TM-score 1.00
- A8A296 · AlphaFold monomer V2.0 prediction for ubiquinone biosynthesis O-methyltransferase (A8A296) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 A8A296
- Elsewhere: RCSB PDB 5DPM · PDBe 5DPM · UniProt A8A296
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