Research workbench
Electron transfer complex between horse heart cytochrome C and zinc- porphyrin substituted cytochrome C peroxidase
Analyse Electron transfer complex between horse heart cytochrome C and zinc- porphyrin… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1U75
- Type
- protein
- Length
- 693 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cytochrome C peroxidase; Cytochrome C
- EC
- 1.11.1.5
- UniProt
- P00004
- Ligands
- ZNH, HEC, PO4
- Pockets
- 5 · best druggability 0.84
Structure
x-ray diffraction · 3 distinct chains · 45% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cytochrome C peroxidase (EC 1.11.1.5) | protein | 294 | 50% helix, 7% strand | — |
| B | Cytochrome C | protein | 104 | 24% helix, 0% strand | P00004 |
| C | Cytochrome C peroxidase (EC 1.11.1.5) | protein | 295 | 47% helix, 7% strand | — |
Ligands and binding sites
- ZNH · Protoporphyrin IX containing Zn · ligand · 2 copies · chains A, C
- HEC · Heme C · ligand · chains B
- PO4 · Phosphate ion · ion · 2 copies · chains A, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 666 | 0.84 | 0.88 | 73 | HEC |
| 2 | 407 | 0.81 | 0.89 | 45 | PO4, ZNH |
| 3 | 385 | 0.80 | 0.89 | 46 | PO4, ZNH |
| 4 | 877 | 0.80 | 0.83 | 74 | empty |
| 5 | 57 | 0.25 | 0.72 | 17 | empty |
Interfaces
2 interfaces between chains.
- A–C · 668 Ų buried · 13 hydrogen bonds · protein-protein
- A–B · 623 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 cofactor (heme c attachment).
Compared structures
- 1U75 · Electron Transfer Complex between Horse Heart Cytochrome c and Zinc-Porphyrin Substituted… · the same entry in another collection · chain A against A, TM-score 1.00
- P00004 · AlphaFold monomer V2.0 prediction for cytochrome C (P00004) · a predicted model of the same protein · chain B against A, TM-score 0.97
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 P00004
- Elsewhere: RCSB PDB 1U75 · PDBe 1U75 · UniProt P00004
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.