MolNFT v1 · #184371 · protein
Crystal structure of the lignin peroxidase (apelip) from agrocybe pediades
7OO5: “Crystal structure of the lignin peroxidase (apelip) from agrocybe pediades”. X-ray diffraction, 3 ligands (HEM, CA, ZN), 2 pockets (best druggability 0.81). MolNFT v1 #184371 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 7OO5
- Type
- protein
- Length
- 331 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lignin peroxidase
- EC
- 1.11.1.14
- Ligands
- HEM, CA, ZN
- Pockets
- 2 · best druggability 0.81
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Lignin peroxidase (EC 1.11.1.14) | protein | 331 | 40% helix, 7% strand | — |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · chains A
- CA · Calcium ion · metal · 2 copies · chains A
- ZN · Zinc ion · metal · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 504 | 0.81 | 0.87 | 52 | HEM |
| 2 | 53 | 0.27 | 0.74 | 19 | empty |
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 7OO5 · Crystal structure of the lignin peroxidase (ApeLiP) from Agrocybe pediades · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Elsewhere: RCSB PDB 7OO5 · PDBe 7OO5
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