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Crystal structure of EVDO2 from micromonospora carbonacea var. aurantiaca complexed with 2-oxoglutarate
Analyse Crystal structure of EVDO2 from micromonospora carbonacea var. aurantiaca… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4XAC
- Type
- protein
- Length
- 245 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- EVDO2
- Ligands
- AKG, NI
- Pockets
- 3 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 27% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | EVDO2 | protein | 245 | 27% helix, 27% strand | — |
Ligands and binding sites
- AKG · 2-oxoglutaric acid · ligand · chains A
- NI · Nickel (II) ion · metal · chains A
- IMD · Imidazole · additive · 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 | 451 | 0.72 | 0.82 | 45 | NI, IMD, AKG |
| 2 | 71 | 0.32 | 0.75 | 14 | empty |
| 3 | 58 | 0.28 | 0.74 | 13 | empty |
Compared structures
- 4XAC · Crystal Structure of EvdO2 from Micromonospora carbonacea var. aurantiaca complexed with… · 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
- Elsewhere: RCSB PDB 4XAC · PDBe 4XAC
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