Research workbench
Phloroglucinol reductase from clostridium sp. with bound NADPH
Analyse Phloroglucinol reductase from clostridium sp. with bound NADPH in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5G4L
- Type
- protein
- Length
- 530 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Oxidoreductase, short chain DEHYDROGENASE/REDUCTASE family protein
- UniProt
- U2C7W9
- Ligands
- NDP
- Pockets
- 6 · best druggability 0.66
Structure
x-ray diffraction · 1 distinct chain · 49% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Oxidoreductase, short chain DEHYDROGENASE/REDUCTASE family protein | protein | 265 | 49% helix, 15% strand | U2C7W9 |
Ligands and binding sites
- NDP · Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 424 | 0.66 | 0.79 | 51 | NDP |
| 2 | 362 | 0.62 | 0.78 | 40 | NDP |
| 3 | 195 | 0.56 | 0.80 | 24 | empty |
| 4 | 153 | 0.47 | 0.77 | 23 | empty |
| 5 | 80 | 0.35 | 0.76 | 22 | empty |
Interfaces
1 interface between chains.
- A–B · 2317 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 5G4L · Phloroglucinol reductase from Clostridium sp. with bound NADPH · 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 U2C7W9
- Elsewhere: RCSB PDB 5G4L · PDBe 5G4L · UniProt U2C7W9
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