Research workbench
Crystal structure of the extralong fungal manganese peroxidase from ceriporiopsis subvermispora in complex with cadmium
Analyse Crystal structure of the extralong fungal manganese peroxidase from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4CZQ
- Type
- protein
- Length
- 367 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Extralong manganese peroxidase
- EC
- 1.11.1.13
- Ligands
- HEM, CD, CA
- Pockets
- 3 · best druggability 0.80
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Extralong manganese peroxidase (EC 1.11.1.13) | protein | 367 | 40% helix, 6% strand | — |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · chains A
- CD · Cadmium ion · metal · 3 copies · chains A
- CA · Calcium ion · metal · 2 copies · chains A
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 447 | 0.80 | 0.88 | 45 | HEM, CD |
| 2 | 156 | 0.49 | 0.78 | 35 | empty |
| 3 | 102 | 0.43 | 0.78 | 26 | GOL |
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 4CZQ · Crystal structure of the extralong fungal manganese peroxidase from Ceriporiopsis… · 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 4CZQ · PDBe 4CZQ
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