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Crystal structure of azospirillum brasilense L-2-keto-3-deoxyarabonate dehydratase (apo form)
Analyse Crystal structure of azospirillum brasilense L-2-keto-3-deoxyarabonate… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7C0C
- Type
- protein
- Length
- 3,640 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- L-2-keto-3-deoxyarabonate dehydratase
- EC
- 4.2.1.43
- UniProt
- Q1JUQ0
- Pockets
- 20 · best druggability 0.85
Structure
x-ray diffraction · 3 distinct chains · 52% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | L-2-keto-3-deoxyarabonate dehydratase (EC 4.2.1.43) | protein | 302 | 51% helix, 12% strand | Q1JUQ0 |
| B, E, F, I, J | L-2-keto-3-deoxyarabonate dehydratase (EC 4.2.1.43) | protein | 304 | 51% helix, 12% strand | Q1JUQ0 |
| C, D, G, H, K, L | L-2-keto-3-deoxyarabonate dehydratase (EC 4.2.1.43) | protein | 303 | 52% helix, 12% strand | Q1JUQ0 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 295 | 0.85 | 0.96 | 47 | empty |
| 2 | 309 | 0.85 | 0.96 | 46 | empty |
| 3 | 298 | 0.85 | 0.96 | 45 | empty |
| 4 | 291 | 0.84 | 0.96 | 46 | empty |
| 5 | 261 | 0.83 | 0.95 | 32 | empty |
Interfaces
21 interfaces between chains.
- K–L · 1634 Ų buried · 24 hydrogen bonds · protein-protein
- A–B · 1628 Ų buried · 21 hydrogen bonds · protein-protein
- E–F · 1619 Ų buried · 18 hydrogen bonds · protein-protein
- I–J · 1615 Ų buried · 21 hydrogen bonds · protein-protein
- G–H · 1608 Ų buried · 20 hydrogen bonds · protein-protein
Compared structures
- 7C0C · Crystal structure of Azospirillum brasilense L-2-keto-3-deoxyarabonate dehydratase (apo… · the same entry in another collection · chain K against K, 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 Q1JUQ0
- Elsewhere: RCSB PDB 7C0C · PDBe 7C0C · UniProt Q1JUQ0
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