MolNFT v1 · #127570 · protein
Structure of a novel oxidoreductase from gloeobacter violaceus
5N0J · GLL2934 protein: “Structure of a novel oxidoreductase from gloeobacter violaceus”. X-ray diffraction, 2 ligands (FAD, SO4), 4 pockets (best druggability 0.80). MolNFT v1 #127570 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 5N0J
- Type
- protein
- Length
- 623 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- GLL2934 protein
- UniProt
- Q7NCP4
- Ligands
- FAD, SO4
- Pockets
- 4 · best druggability 0.80
Structure
x-ray diffraction · 2 distinct chains · 31% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | GLL2934 protein | protein | 300 | 30% helix, 30% strand | Q7NCP4 |
| B | GLL2934 protein | protein | 323 | 32% helix, 28% strand | Q7NCP4 |
Ligands and binding sites
- FAD · Flavin-adenine dinucleotide · ligand · 4 copies · chains A, B
- SO4 · Sulfate ion · ion · 15 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 541 | 0.80 | 0.86 | 65 | FAD |
| 2 | 530 | 0.80 | 0.86 | 65 | FAD |
| 3 | 314 | 0.57 | 0.76 | 27 | empty |
| 4 | 260 | 0.52 | 0.76 | 27 | empty |
Interfaces
1 interface between chains.
- A–B · 2642 Ų buried · 33 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 5N0J · Structure of a novel oxidoreductase from Gloeobacter violaceus · 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 Q7NCP4
- Elsewhere: RCSB PDB 5N0J · PDBe 5N0J · UniProt Q7NCP4
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