MolNFT v1 · #51124 · protein
R92A mutant of bacillus subtilis oxalate decarboxylase oxdc
2UY8: “R92A mutant of bacillus subtilis oxalate decarboxylase oxdc”. X-ray diffraction, 1 ligand (MN), 5 pockets (best druggability 0.55). MolNFT v1 #51124 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2UY8
- Type
- protein
- Length
- 377 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Oxalate decarboxylase oxdc
- EC
- 4.1.1.2
- UniProt
- O34714
- Ligands
- MN
- Pockets
- 5 · best druggability 0.55
Structure
x-ray diffraction · 1 distinct chain · 15% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Oxalate decarboxylase oxdc (EC 4.1.1.2) | protein | 377 | 15% helix, 40% strand | O34714 |
Ligands and binding sites
- MN · Manganese (II) ion · metal · 2 copies · chains A
- TRS · 2-amino-2-hydroxymethyl-propane-1,3-diol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 136 | 0.55 | 0.82 | 25 | empty |
| 2 | 63 | 0.31 | 0.75 | 10 | empty |
| 3 | 59 | 0.30 | 0.75 | 15 | empty |
| 4 | 55 | 0.29 | 0.75 | 16 | empty |
| 5 | 56 | 0.27 | 0.73 | 14 | empty |
Compared structures
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 O34714
- Elsewhere: RCSB PDB 2UY8 · PDBe 2UY8 · UniProt O34714
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