MolNFT v1 · #154822 · protein
Cryoem MAP and model of nitrite reductase at pH 6.2
6KNF · Copper-containing nitrite reductase: “Cryoem MAP and model of nitrite reductase at pH 6.2”. Electron microscopy, 1 ligand (CU), 19 pockets (best druggability 0.83). MolNFT v1 #154822 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6KNF
- Type
- protein
- Length
- 1,002 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Copper-containing nitrite reductase
- EC
- 1.7.2.1
- UniProt
- P25006
- Ligands
- CU
- Pockets
- 19 · best druggability 0.83
Structure
electron microscopy · 1 distinct chain · 11% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Copper-containing nitrite reductase (EC 1.7.2.1) | protein | 334 | 11% helix, 41% strand | P25006 |
Ligands and binding sites
- CU · Copper (II) ion · metal · 6 copies · chains A, C, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
19 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 299 | 0.83 | 0.94 | 28 | empty |
| 2 | 677 | 0.82 | 0.86 | 54 | empty |
| 3 | 133 | 0.78 | 0.96 | 23 | empty |
| 4 | 125 | 0.77 | 0.95 | 22 | empty |
| 5 | 124 | 0.76 | 0.95 | 22 | empty |
Interfaces
3 interfaces between chains.
- A–B · 2103 Ų buried · 26 hydrogen bonds · protein-protein
- B–C · 2101 Ų buried · 26 hydrogen bonds · protein-protein
- A–C · 2093 Ų buried · 25 hydrogen bonds · protein-protein
Compared structures
- 6KNF · CryoEM map and model of Nitrite Reductase at pH 6.2 · the same entry in another collection · 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 P25006
- Elsewhere: RCSB PDB 6KNF · PDBe 6KNF · UniProt P25006
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.