Research workbench
Assimilatory nitrite reductase (NII4) from tobbaco root
Analyse Assimilatory nitrite reductase (NII4) from tobbaco root in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3B0H
- Type
- protein
- Length
- 1,071 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nitrite reductase
- EC
- 1.7.7.1
- UniProt
- Q76KA9
- Ligands
- SRM, SF4, K, CL
- Pockets
- 8 · best druggability 0.81
Structure
x-ray diffraction · 2 distinct chains · 36% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nitrite reductase (EC 1.7.7.1) | protein | 536 | 36% helix, 24% strand | Q76KA9 |
| B | Nitrite reductase (EC 1.7.7.1) | protein | 535 | 37% helix, 24% strand | Q76KA9 |
Ligands and binding sites
- SRM · Siroheme · ligand · 2 copies · chains A, B
- SF4 · Iron/sulfur cluster · ligand · 2 copies · chains A, B
- K · Potassium ion · metal · 2 copies · chains A, B
- CL · Chloride ion · ion · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 623 | 0.81 | 0.86 | 68 | SRM, SF4, CL |
| 2 | 616 | 0.80 | 0.86 | 73 | SRM, SF4, CL |
| 3 | 876 | 0.71 | 0.76 | 78 | empty |
| 4 | 170 | 0.49 | 0.77 | 24 | empty |
| 5 | 138 | 0.45 | 0.76 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 196 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 3B0H · Assimilatory nitrite reductase (Nii4) from tobbaco root · the same entry in another collection · chain B against B, 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 Q76KA9
- Elsewhere: RCSB PDB 3B0H · PDBe 3B0H · UniProt Q76KA9
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.