Research workbench
Aldehyde oxidoreductase from desulfovibrio gigas (mop), soaked with benzaldehyde
Analyse Aldehyde oxidoreductase from desulfovibrio gigas (mop), soaked with benzaldehyde in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4US8
- Type
- protein
- Length
- 907 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Aldehyde oxidoreductase
- EC
- 1.2.99.7
- UniProt
- Q46509
- Ligands
- HBX, FES, BCT, PCD, MG, CL
- Pockets
- 8 · best druggability 0.80
Structure
x-ray diffraction · 1 distinct chain · 33% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Aldehyde oxidoreductase (EC 1.2.99.7) | protein | 907 | 33% helix, 23% strand | Q46509 |
Ligands and binding sites
- HBX · benzaldehyde · ligand · 4 copies · chains A
- FES · Fe2/s2 (inorganic) cluster · ligand · 2 copies · chains A
- BCT · Bicarbonate ion · ligand · chains A
- PCD · (molybdopterin-cytosine dinucleotide-S,S)-dioxo-aqua-molybdenum(v) · ligand · chains A
- MG · Magnesium ion · metal · 4 copies · chains A
- CL · Chloride ion · ion · 2 copies · chains A
- PGE · Triethylene glycol · additive · chains A
- IPA · Isopropyl alcohol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 456 | 0.80 | 0.88 | 77 | PGE, PCD, HBX |
| 2 | 167 | 0.58 | 0.82 | 31 | empty |
| 3 | 87 | 0.44 | 0.80 | 23 | empty |
| 4 | 105 | 0.37 | 0.74 | 19 | empty |
| 5 | 95 | 0.37 | 0.75 | 20 | empty |
Modifications
Observed in the structure: 1 modified (oxidation).
Compared structures
- 4US8 · Aldehyde Oxidoreductase from Desulfovibrio gigas (MOP), soaked with benzaldehyde · the same entry in another collection · chain A against A, TM-score 1.00
- Q46509 · AlphaFold monomer V2.0 prediction for aldehyde oxidoreductase (Q46509) · a predicted model of the same protein · 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 Q46509
- Elsewhere: RCSB PDB 4US8 · PDBe 4US8 · UniProt Q46509
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