MolNFT v1 · #75758 · protein
Soybean lipoxygenase-1 - re-refinement
3PZW · Seed lipoxygenase-1: “Soybean lipoxygenase-1 - re-refinement”. X-ray diffraction, 1 ligand (FE2), 18 pockets (best druggability 0.83). MolNFT v1 #75758 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 3PZW
- Type
- protein
- Length
- 820 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Seed lipoxygenase-1
- EC
- 1.13.11.12
- UniProt
- P08170
- Ligands
- FE2
- Pockets
- 18 · best druggability 0.83
Structure
x-ray diffraction · 1 distinct chain · 43% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Seed lipoxygenase-1 (EC 1.13.11.12) | protein | 820 | 43% helix, 15% strand | P08170 |
Ligands and binding sites
- FE2 · Fe (II) ion · metal · chains A
- EDO · 1,2-ethanediol · additive · 4 copies · chains A
- ACT · Acetate ion · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
18 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 804 | 0.83 | 0.86 | 74 | EDO |
| 2 | 72 | 0.75 | 0.98 | 21 | empty |
| 3 | 376 | 0.70 | 0.82 | 36 | EDO |
| 4 | 53 | 0.69 | 0.97 | 17 | empty |
| 5 | 232 | 0.52 | 0.76 | 32 | empty |
Compared structures
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 P08170
- Elsewhere: RCSB PDB 3PZW · PDBe 3PZW · UniProt P08170
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