Research workbench
Crystal structure of putative oxidoreductase (YP_213212.1) from bacteroides fragilis nctc 9343 at 1.99 a resolution
Analyse Crystal structure of putative oxidoreductase (YP_213212.1) from bacteroides… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3EOF
- Type
- protein
- Length
- 494 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative oxidoreductase
- UniProt
- Q5L9C9
- Ligands
- FMN
- Pockets
- 2 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 51% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative oxidoreductase | protein | 248 | 50% helix, 14% strand | Q5L9C9 |
| B | Putative oxidoreductase | protein | 246 | 52% helix, 14% strand | Q5L9C9 |
Ligands and binding sites
- FMN · Flavin mononucleotide · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 490 | 0.71 | 0.80 | 51 | FMN |
| 2 | 512 | 0.70 | 0.80 | 48 | FMN |
Interfaces
1 interface between chains.
- A–B · 5154 Ų buried · 77 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 19 modified (engineered).
Compared structures
- 3EOF · Crystal structure of putative oxidoreductase (YP_213212.1) from Bacteroides fragilis NCTC… · 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 Q5L9C9
- Elsewhere: RCSB PDB 3EOF · PDBe 3EOF · UniProt Q5L9C9
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