MolNFT v1 · #40500 · protein
Crystal structure of soybean lipoxygenase-D
2IUK · Seed lipoxygenase: “Crystal structure of soybean lipoxygenase-D”. X-ray diffraction, 1 ligand (FE), 11 pockets (best druggability 0.83). MolNFT v1 #40500 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2IUK
- Type
- protein
- Length
- 1,670 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Seed lipoxygenase
- EC
- 1.13.11.12
- UniProt
- P24095
- Ligands
- FE
- Pockets
- 11 · best druggability 0.83
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Seed lipoxygenase (EC 1.13.11.12) | protein | 835 | 40% helix, 15% strand | P24095 |
Ligands and binding sites
- FE · Fe (III) ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 607 | 0.83 | 0.87 | 63 | empty |
| 2 | 651 | 0.82 | 0.86 | 61 | empty |
| 3 | 520 | 0.69 | 0.79 | 48 | empty |
| 4 | 60 | 0.68 | 0.96 | 18 | empty |
| 5 | 411 | 0.67 | 0.80 | 38 | empty |
Interfaces
1 interface between chains.
- A–B · 14 Ų buried · 0 hydrogen bonds · protein-protein
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 P24095
- Elsewhere: RCSB PDB 2IUK · PDBe 2IUK · UniProt P24095
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