Research workbench
The 2 ångström structure of 6-oxo camphor hydrolase: new structural diversity in the crotonase superfamily
Analyse The 2 ångström structure of 6-oxo camphor hydrolase: new structural diversity… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1O8U
- Type
- protein
- Length
- 1,489 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 6-oxo camphor hydrolase
- UniProt
- Q93TU6
- Ligands
- NA
- Pockets
- 16 · best druggability 0.86
Structure
x-ray diffraction · 3 distinct chains · 51% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, E | 6-oxo camphor hydrolase | protein | 249 | 51% helix, 18% strand | Q93TU6 |
| C, D | 6-oxo camphor hydrolase | protein | 247 | 51% helix, 18% strand | Q93TU6 |
| F | 6-oxo camphor hydrolase | protein | 248 | 51% helix, 18% strand | Q93TU6 |
Ligands and binding sites
- NA · Sodium ion · metal · 2 copies · chains A, B, C, D, E, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
16 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 582 | 0.86 | 0.91 | 63 | empty |
| 2 | 573 | 0.85 | 0.91 | 69 | NA |
| 3 | 493 | 0.85 | 0.92 | 59 | empty |
| 4 | 407 | 0.85 | 0.93 | 47 | empty |
| 5 | 541 | 0.84 | 0.90 | 69 | NA |
Interfaces
15 interfaces between chains.
- B–E · 1298 Ų buried · 20 hydrogen bonds · protein-protein
- A–B · 1282 Ų buried · 17 hydrogen bonds · protein-protein
- E–F · 1282 Ų buried · 18 hydrogen bonds · protein-protein
- B–C · 1275 Ų buried · 19 hydrogen bonds · protein-protein
- A–C · 1274 Ų buried · 19 hydrogen bonds · protein-protein
Compared structures
- 1O8U · The 2 Angstrom Structure of 6-Oxo Camphor Hydrolase: New Structural Diversity in the… · the same entry in another collection · chain F against F, TM-score 1.00
- Q93TU6 · AlphaFold monomer V2.0 prediction for 6-oxocamphor hydrolase (Q93TU6) · a predicted model of the same protein · 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 Q93TU6
- Elsewhere: RCSB PDB 1O8U · PDBe 1O8U · UniProt Q93TU6
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