Research workbench
Crystallographic studies on two bioisosteric analogues, N-acetyl-beta- D-glucopyranosylamine and N-trifluoroacetyl-beta-D- glucopyranosylamine, potent inhibitors of muscle glycogen phosphorylase
Analyse Crystallographic studies on two bioisosteric analogues, N-acetyl-beta… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1WW3
- Type
- protein
- Length
- 809 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glycogen phosphorylase, muscle form
- EC
- 2.4.1.1
- UniProt
- P00489
- Ligands
- NTF, PLP
- Pockets
- 13 · best druggability 0.85
Structure
x-ray diffraction · 1 distinct chain · 52% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glycogen phosphorylase, muscle form (EC 2.4.1.1) | protein | 809 | 52% helix, 15% strand | P00489 |
Ligands and binding sites
- NTF · N-(trifluoroacetyl)-beta-D-glucopyranosylamine · ligand · chains A
- PLP · Pyridoxal-5'-phosphate · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 322 | 0.85 | 0.95 | 57 | NTF, PLP |
| 2 | 260 | 0.66 | 0.83 | 32 | empty |
| 3 | 260 | 0.65 | 0.82 | 48 | empty |
| 4 | 115 | 0.53 | 0.82 | 19 | empty |
| 5 | 221 | 0.51 | 0.76 | 20 | empty |
Modifications
Observed in the structure: 1 cofactor (pyridoxal phosphate Schiff base).
Compared structures
- 1WW3 · Crystallographic studies on two bioisosteric analogues… · 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 P00489
- Elsewhere: RCSB PDB 1WW3 · PDBe 1WW3 · UniProt P00489
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