MolNFT v1 · #25244 · protein
Coproporphyrinogen III oxidase from leishmania major
1VJU: “Coproporphyrinogen III oxidase from leishmania major”. X-ray diffraction, 6 pockets (best druggability 0.76). MolNFT v1 #25244 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1VJU
- Type
- protein
- Length
- 586 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Coproporphyrinogen III oxidase
- EC
- 1.3.3.3
- UniProt
- P84155
- Pockets
- 6 · best druggability 0.76
Structure
x-ray diffraction · 2 distinct chains · 46% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Coproporphyrinogen III oxidase (EC 1.3.3.3) | protein | 291 | 46% helix, 28% strand | P84155 |
| B | Coproporphyrinogen III oxidase (EC 1.3.3.3) | protein | 295 | 46% helix, 26% strand | P84155 |
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 682 | 0.76 | 0.81 | 45 | empty |
| 2 | 622 | 0.74 | 0.81 | 55 | empty |
| 3 | 199 | 0.48 | 0.75 | 27 | empty |
| 4 | 160 | 0.42 | 0.74 | 20 | empty |
| 5 | 89 | 0.39 | 0.77 | 26 | empty |
Interfaces
1 interface between chains.
- A–B · 245 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 modified (engineered).
Compared structures
- 1VJU · Coproporphyrinogen III oxidase from Leishmania major · the same entry in another collection · chain A against A, TM-score 1.00
- P84155 · AlphaFold monomer V2.0 prediction for oxygen-dependent coproporphyrinogen-III oxidase… · a predicted model of the same protein · chain A against A, TM-score 0.98
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 P84155
- Elsewhere: RCSB PDB 1VJU · PDBe 1VJU · UniProt P84155
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