MolNFT v1 · #113613 · protein
Atomic resolution structure of nitrite bound state of the achromobacter cycloclastes cu nitrite reductase at 0.87 a resolution
5AKR · Copper-containing nitrite reductase: “Atomic resolution structure of nitrite bound state of the achromobacter cycloclastes cu nitrite reductase at…”. X-ray diffraction, 3 ligands (CU, NO2, SO4), 1 pocket (best druggability 0.75).…
- PDB
- 5AKR
- Type
- protein
- Length
- 337 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Copper-containing nitrite reductase
- EC
- 1.7.2.1
- UniProt
- P25006
- Ligands
- CU, NO2, SO4
- Pockets
- 1 · best druggability 0.75
Structure
x-ray diffraction · 1 distinct chain · 11% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Copper-containing nitrite reductase (EC 1.7.2.1) | protein | 337 | 11% helix, 39% strand | P25006 |
Ligands and binding sites
- CU · Copper (II) ion · metal · 2 copies · chains A
- NO2 · Nitrite ion · ion · chains A
- SO4 · Sulfate ion · ion · chains A
- ACT · Acetate ion · additive · 3 copies · chains A
- MLI · Malonate ion · additive · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 201 | 0.75 | 0.90 | 28 | empty |
Compared structures
- 5AKR · Atomic resolution structure of nitrite bound state of the achromobacter cycloclastes cu… · the same entry in another collection · chain A against A, TM-score 1.00
- P25006 · AlphaFold monomer V2.0 prediction for copper-containing nitrite reductase (P25006) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 5AKR · PDBe 5AKR · UniProt P25006
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