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Biosynthetic thiolase from Z. ramigera. complex of the N316A mutant with coenzyme a.
Analyse Biosynthetic thiolase from Z. ramigera. complex of the N316A mutant with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2WKT
- Type
- protein
- Length
- 1,556 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Acetyl-CoA acetyltransferase
- EC
- 2.3.1.9
- UniProt
- P07097
- Ligands
- COA, K, NA, SO4, CL
- Pockets
- 14 · best druggability 0.79
Structure
x-ray diffraction · 1 distinct chain · 39% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Acetyl-CoA acetyltransferase (EC 2.3.1.9) | protein | 389 | 39% helix, 24% strand | P07097 |
Ligands and binding sites
- COA · Coenzyme A · ligand · 4 copies · chains A, C, D, B
- K · Potassium ion · metal · chains A
- NA · Sodium ion · metal · chains C
- SO4 · Sulfate ion · ion · 9 copies · chains A, B, C, D
- CL · Chloride ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
14 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 122 | 0.79 | 0.98 | 35 | K |
| 2 | 116 | 0.79 | 0.98 | 37 | empty |
| 3 | 233 | 0.59 | 0.79 | 37 | COA |
| 4 | 147 | 0.59 | 0.83 | 25 | empty |
| 5 | 130 | 0.56 | 0.82 | 24 | empty |
Interfaces
6 interfaces between chains.
- A–B · 2648 Ų buried · 77 hydrogen bonds · protein-protein
- C–D · 2640 Ų buried · 75 hydrogen bonds · protein-protein
- A–D · 682 Ų buried · 11 hydrogen bonds · protein-protein
- B–C · 674 Ų buried · 10 hydrogen bonds · protein-protein
- A–C · 302 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 modified (oxidation).
Compared structures
- 2WKT · Biosynthetic thiolase from Z. ramigera. complex of the N316A mutant with coenzyme a. · the same entry in another collection · chain A against A, TM-score 1.00
- P07097 · AlphaFold monomer V2.0 prediction for acetyl-CoA acetyltransferase (P07097) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P07097
- Elsewhere: RCSB PDB 2WKT · PDBe 2WKT · UniProt P07097
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