Research workbench
Cytochrome C nitrite reductase
Analyse Cytochrome C nitrite reductase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1QDB
- Type
- protein
- Length
- 1,419 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cytochrome C nitrite reductase
- UniProt
- Q9Z4P4
- Ligands
- HEC, CA, SO4
- Pockets
- 13 · best druggability 0.89
Structure
x-ray diffraction · 1 distinct chain · 53% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Cytochrome C nitrite reductase | protein | 473 | 53% helix, 8% strand | Q9Z4P4 |
Ligands and binding sites
- HEC · Heme C · ligand · 15 copies · chains A, B, C
- CA · Calcium ion · metal · 3 copies · chains A, B, C
- SO4 · Sulfate ion · ion · 9 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 983 | 0.89 | 0.91 | 128 | SO4, HEC |
| 2 | 859 | 0.89 | 0.92 | 110 | SO4, HEC |
| 3 | 1139 | 0.87 | 0.88 | 115 | SO4, HEC |
| 4 | 146 | 0.72 | 0.91 | 28 | empty |
| 5 | 165 | 0.69 | 0.88 | 31 | empty |
Interfaces
2 interfaces between chains.
- A–B · 1764 Ų buried · 25 hydrogen bonds · protein-protein
- B–C · 504 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 30 cofactor (heme c attachment).
Compared structures
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 Q9Z4P4
- Elsewhere: RCSB PDB 1QDB · PDBe 1QDB · UniProt Q9Z4P4
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.