Research workbench
No-bound copper nitrite reductase from bradyrhizobium sp. ors 375 (two-domain) at 1.19 a resolution (unrestrained, full matrix refinement by shelx)
Analyse No-bound copper nitrite reductase from bradyrhizobium sp. ors 375 (two-domain)… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6ZAV
- Type
- protein
- Length
- 345 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
- H0SLX7
- Ligands
- GLC, FRU, CU, SO4, NO
- Pockets
- 1 · best druggability 0.46
Structure
x-ray diffraction · 1 distinct chain · 14% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Copper-containing nitrite reductase (EC 1.7.2.1) | protein | 345 | 14% helix, 39% strand | H0SLX7 |
Ligands and binding sites
- GLC · alpha-D-glucopyranose · sugar · 4 copies · chains A
- FRU · beta-D-fructofuranose · sugar · 4 copies · chains A
- CU · Copper (II) ion · metal · 2 copies · chains A
- SO4 · Sulfate ion · ion · 8 copies · chains A
- NO · Nitric oxide · ion · 4 copies · chains A
- EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid · additive · 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, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 58 | 0.46 | 0.84 | 18 | empty |
Compared structures
- 6ZAV · NO-bound copper nitrite reductase from Bradyrhizobium sp. ORS 375 (two-domain) at 1.19 A… · 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 H0SLX7
- Elsewhere: RCSB PDB 6ZAV · PDBe 6ZAV · UniProt H0SLX7
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