Research workbench
Crystal structures of 2-oxoglutarate dependent dioxygenase (CTB9) from cercospora sp. JNU001
Analyse Crystal structures of 2-oxoglutarate dependent dioxygenase (CTB9) from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7EUS
- Type
- protein
- Length
- 580 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 2-oxoglutarate (2-og)-dependent dioxygenase
- Ligands
- CU
- Pockets
- 4 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 21% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 2-oxoglutarate (2-og)-dependent dioxygenase | protein | 289 | 21% helix, 34% strand | — |
| B | 2-oxoglutarate (2-og)-dependent dioxygenase | protein | 291 | 21% helix, 32% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 512 | 0.73 | 0.82 | 70 | GOL |
| 2 | 370 | 0.70 | 0.82 | 44 | empty |
| 3 | 480 | 0.67 | 0.78 | 66 | empty |
| 4 | 79 | 0.46 | 0.81 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 1127 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 modified (engineered).
Compared structures
- 7EUS · Crystal structures of 2-oxoglutarate dependent dioxygenase (CTB9) from Cercospora sp.… · 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 7EUS · PDBe 7EUS
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