MolNFT v1 · #14368 · protein
Crystal structure of oxidized recombinant cytochrome C4 from pseudomonas stutzeri
1M70: “Crystal structure of oxidized recombinant cytochrome C4 from pseudomonas stutzeri”. X-ray diffraction, 1 ligand (HEC), 5 pockets (best druggability 0.88). MolNFT v1 #14368 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 1M70
- Type
- protein
- Length
- 760 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cytochrome C4
- UniProt
- Q52369
- Ligands
- HEC
- Pockets
- 5 · best druggability 0.88
Structure
x-ray diffraction · 1 distinct chain · 51% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Cytochrome C4 | protein | 190 | 51% helix, 2% strand | Q52369 |
Ligands and binding sites
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 | 1178 | 0.88 | 0.88 | 160 | HEC |
| 2 | 533 | 0.82 | 0.88 | 81 | HEC |
| 3 | 527 | 0.81 | 0.87 | 70 | HEC |
| 4 | 244 | 0.52 | 0.76 | 29 | empty |
| 5 | 82 | 0.32 | 0.74 | 23 | empty |
Interfaces
3 interfaces between chains.
- B–D · 482 Ų buried · 1 hydrogen bond · protein-protein
- B–C · 450 Ų buried · 1 hydrogen bond · protein-protein
- A–B · 201 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 16 cofactor (heme c attachment).
Compared structures
- 1M70 · Crystal structure of oxidized recombinant cytochrome c4 from Pseudomonas stutzeri · the same entry in another collection · chain D against D, TM-score 1.00
- Q52369 · AlphaFold monomer V2.0 prediction for cytochrome C4 (Q52369) · a predicted model of the same protein · chain C 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 Q52369
- Elsewhere: RCSB PDB 1M70 · PDBe 1M70 · UniProt Q52369
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