Research workbench
Constructing tailored isoprenoid products by structure-guided modification of geranylgeranyl reductase
Analyse Constructing tailored isoprenoid products by structure-guided modification of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4OPU
- Type
- protein
- Length
- 452 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Conserved archaeal protein
- EC
- 1.3.1.83
- UniProt
- Q4JA33
- Ligands
- GRG, FDA
- Pockets
- 3 · best druggability 0.88
Structure
x-ray diffraction · 1 distinct chain · 39% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Conserved archaeal protein (EC 1.3.1.83) | protein | 452 | 39% helix, 26% strand | Q4JA33 |
Ligands and binding sites
- GRG · Geranylgeranyl diphosphate · ligand · 2 copies · chains A
- FDA · Dihydroflavine-adenine dinucleotide · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1174 | 0.88 | 0.89 | 122 | FDA, GRG |
| 2 | 77 | 0.37 | 0.77 | 12 | empty |
| 3 | 71 | 0.36 | 0.77 | 17 | empty |
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 4OPU · Constructing tailored isoprenoid products by structure-guided modification of… · the same entry in another collection · chain A against A, TM-score 1.00
- Q4JA33 · AlphaFold monomer V2.0 prediction for digeranylgeranylglycerophospholipid reductase… · 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 Q4JA33
- Elsewhere: RCSB PDB 4OPU · PDBe 4OPU · UniProt Q4JA33
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