MolNFT v1 · #174257 · protein
Structural and mechanistic insights into the biosynthesis of digeranylgeranylglyceryl phosphate synthase in membranes
7BPU: “Structural and mechanistic insights into the biosynthesis of digeranylgeranylglyceryl phosphate synthase in…”. X-ray diffraction, 1 ligand (PO4), 4 pockets (best druggability 0.70). MolNFT v1 #174257 on GenesisL1: 3D structure…
- PDB
- 7BPU
- Type
- protein
- Length
- 558 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Digeranylgeranylglyceryl phosphate synthase
- EC
- 2.5.1.42
- UniProt
- Q57727
- Ligands
- PO4
- Pockets
- 4 · best druggability 0.70
Structure
x-ray diffraction · 1 distinct chain · 81% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Digeranylgeranylglyceryl phosphate synthase (EC 2.5.1.42) | protein | 279 | 81% helix, 1% strand | Q57727 |
Ligands and binding sites
- PO4 · Phosphate ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 660 | 0.70 | 0.78 | 69 | empty |
| 2 | 530 | 0.69 | 0.79 | 55 | empty |
| 3 | 236 | 0.47 | 0.72 | 28 | empty |
| 4 | 73 | 0.28 | 0.72 | 22 | empty |
Interfaces
1 interface between chains.
- A–B · 104 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 7BPU · Structural and mechanistic insights into the biosynthesis of Digeranylgeranylglyceryl… · the same entry in another collection · chain A against A, TM-score 1.00
- Q57727 · AlphaFold monomer V2.0 prediction for digeranylgeranylglyceryl phosphate synthase (Q57727) · a predicted model of the same protein · chain A against A, TM-score 0.91
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 Q57727
- Elsewhere: RCSB PDB 7BPU · PDBe 7BPU · UniProt Q57727
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.