MolNFT v1 · #27597 · protein
Human liver glycogen phosphorylase a complexed with chloroindoloyl glycine amide
1XOI · Glycogen phosphorylase, liver form: “Human liver glycogen phosphorylase a complexed with chloroindoloyl glycine amide”. X-ray diffraction, 3 ligands (NBG, PLP, 288), 20 pockets (best druggability 0.86). MolNFT v1 #27597 on…
- PDB
- 1XOI
- Type
- protein
- Length
- 1,608 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glycogen phosphorylase, liver form
- EC
- 2.4.1.1
- UniProt
- P06737
- Ligands
- NBG, PLP, 288
- Pockets
- 20 · best druggability 0.86
Structure
x-ray diffraction · 1 distinct chain · 52% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Glycogen phosphorylase, liver form (EC 2.4.1.1) | protein | 804 | 52% helix, 15% strand | P06737 |
Ligands and binding sites
- NBG · N-acetyl-beta-D-glucopyranosylamine · ligand · 2 copies · chains A, B
- PLP · Pyridoxal-5'-phosphate · ligand · 2 copies · chains A, B
- 288 · 5-chloro-1H-indole-2-carboxylic acid{[cyclopentyl-(2-hydroxy-ethyl)-carbamoyl]-methyl}-amide · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1163 | 0.86 | 0.86 | 83 | 288 |
| 2 | 301 | 0.85 | 0.95 | 50 | NBG, PLP |
| 3 | 529 | 0.81 | 0.87 | 80 | NBG, PLP |
| 4 | 133 | 0.78 | 0.96 | 40 | empty |
| 5 | 58 | 0.70 | 0.97 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 2237 Ų buried · 19 hydrogen bonds · protein-protein
Compared structures
- 1XOI · Human Liver Glycogen Phosphorylase A complexed with Chloroindoloyl glycine amide · the same entry in another collection · chain A against A, TM-score 1.00
- P06737 · AlphaFold monomer V2.0 prediction for glycogen phosphorylase, liver form (P06737) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P06737
- Elsewhere: RCSB PDB 1XOI · PDBe 1XOI · UniProt P06737
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