MolNFT v1 · #51774 · protein
Crystal structure of the di-haem cytochrome C peroxidase from pseudomonas aeruginosa - mixed valence form
2VHD · Cytochrome C551 peroxidase: “Crystal structure of the di-haem cytochrome C peroxidase from pseudomonas aeruginosa - mixed valence form”. X-ray diffraction, 2 ligands (HEC, CA), 9 pockets (best druggability 0.87). MolNFT v1 #51774 on…
- PDB
- 2VHD
- Type
- protein
- Length
- 646 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cytochrome C551 peroxidase
- EC
- 1.11.1.5
- UniProt
- P14532
- Ligands
- HEC, CA
- Pockets
- 9 · best druggability 0.87
Structure
x-ray diffraction · 1 distinct chain · 42% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Cytochrome C551 peroxidase (EC 1.11.1.5) | protein | 323 | 42% helix, 6% strand | P14532 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 526 | 0.87 | 0.93 | 76 | HEC |
| 2 | 266 | 0.84 | 0.95 | 45 | HEC, CA |
| 3 | 122 | 0.79 | 0.97 | 35 | empty |
| 4 | 215 | 0.76 | 0.91 | 37 | HEC |
| 5 | 214 | 0.60 | 0.81 | 38 | empty |
Interfaces
1 interface between chains.
- A–B · 1651 Ų buried · 17 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 7 cofactor (heme c attachment).
Compared structures
- 2VHD · Crystal Structure Of The Di-Haem Cytochrome C Peroxidase From Pseudomonas aeruginosa… · the same entry in another collection · chain A against A, TM-score 1.00
- P14532 · AlphaFold monomer V2.0 prediction for cytochrome C551 peroxidase (P14532) · a predicted model of the same protein · 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
- Every structure of UniProt P14532
- Elsewhere: RCSB PDB 2VHD · PDBe 2VHD · UniProt P14532
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