MolNFT v1 · #179037 · protein
Cryo-EM structure of unliganded octameric prenyltransferase domain of phomopsis amygdali fusicoccadiene synthase
7JTH: “Cryo-EM structure of unliganded octameric prenyltransferase domain of phomopsis amygdali fusicoccadiene…”. Electron microscopy, 20 pockets (best druggability 0.82). MolNFT v1 #179037 on GenesisL1: 3D structure, binding sites and…
- PDB
- 7JTH
- Type
- protein
- Length
- 2,332 residues
- Chains
- 8
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fusicoccadiene synthase
- EC
- 4.2.3.43, 2.5.1.29
- UniProt
- A2PZA5
- Pockets
- 20 · best druggability 0.82
Structure
electron microscopy · 2 distinct chains · 68% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G | Fusicoccadiene synthase (EC 4.2.3.43, 2.5.1.29) | protein | 294 | 68% helix, 1% strand | A2PZA5 |
| B, D, F, H | Fusicoccadiene synthase (EC 4.2.3.43, 2.5.1.29) | protein | 289 | 69% helix, 1% strand | A2PZA5 |
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 | 996 | 0.82 | 0.83 | 119 | empty |
| 2 | 613 | 0.81 | 0.86 | 91 | empty |
| 3 | 1101 | 0.80 | 0.81 | 111 | empty |
| 4 | 633 | 0.79 | 0.84 | 93 | empty |
| 5 | 767 | 0.79 | 0.82 | 106 | empty |
Interfaces
16 interfaces between chains.
- A–B · 1600 Ų buried · 9 hydrogen bonds · protein-protein
- E–F · 1597 Ų buried · 9 hydrogen bonds · protein-protein
- C–D · 1570 Ų buried · 11 hydrogen bonds · protein-protein
- G–H · 1568 Ų buried · 11 hydrogen bonds · protein-protein
- A–E · 456 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 7JTH · Cryo-EM structure of unliganded octameric prenyltransferase domain of Phomopsis amygdali… · the same entry in another collection · chain H against H, TM-score 1.00
- A2PZA5 · AlphaFold monomer V2.0 prediction for fusicoccadiene synthase (A2PZA5) · a predicted model of the same protein · chain C against A, TM-score 0.96
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 A2PZA5
- Elsewhere: RCSB PDB 7JTH · PDBe 7JTH · UniProt A2PZA5
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