MolNFT v1 · #191251 · protein
Human glycogenin-1 and glycogen synthase-1 complex in the apo ordered state
8CVZ: “Human glycogenin-1 and glycogen synthase-1 complex in the apo ordered state”. Electron microscopy, 20 pockets (best druggability 0.79). MolNFT v1 #191251 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 8CVZ
- Type
- protein
- Length
- 3,070 residues
- Chains
- 10
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glycogenin-1; Glycogen [starch] synthase, muscle
- EC
- 2.4.1.186, 2.4.1.11
- UniProt
- P46976, P13807
- Pockets
- 20 · best druggability 0.79
Structure
electron microscopy · 8 distinct chains · 47% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| J | Glycogenin-1 (EC 2.4.1.186) | protein | 261 | 41% helix, 18% strand | P46976 |
| B | Glycogen [starch] synthase, muscle (EC 2.4.1.11) | protein | 602 | 48% helix, 11% strand | P13807 |
| C | Glycogen [starch] synthase, muscle (EC 2.4.1.11) | protein | 600 | 48% helix, 11% strand | P13807 |
| D | Glycogen [starch] synthase, muscle (EC 2.4.1.11) | protein | 601 | 50% helix, 13% strand | P13807 |
| A | Glycogen [starch] synthase, muscle (EC 2.4.1.11) | protein | 601 | 48% helix, 12% strand | P13807 |
| E, F | Glycogenin-1 (EC 2.4.1.186) | protein | 35 | 49% helix, 0% strand | P46976 |
| I | Glycogenin-1 (EC 2.4.1.186) | protein | 267 | 41% helix, 18% strand | P46976 |
| G, H | Glycogenin-1 (EC 2.4.1.186) | protein | 34 | 50% helix, 0% strand | P46976 |
Pockets
20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 171 | 0.79 | 0.95 | 33 | empty |
| 2 | 903 | 0.72 | 0.76 | 77 | empty |
| 3 | 275 | 0.69 | 0.84 | 39 | empty |
| 4 | 105 | 0.69 | 0.92 | 23 | empty |
| 5 | 486 | 0.67 | 0.78 | 50 | empty |
Interfaces
15 interfaces between chains.
- B–C · 1584 Ų buried · 4 hydrogen bonds · protein-protein
- D–A · 1527 Ų buried · 2 hydrogen bonds · protein-protein
- A–E · 1362 Ų buried · 25 hydrogen bonds · protein-protein
- B–F · 1348 Ų buried · 20 hydrogen bonds · protein-protein
- J–I · 1266 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 8CVZ · Human glycogenin-1 and glycogen synthase-1 complex in the apo ordered state · the same entry in another collection · chain H against H, TM-score 1.00
- P13807 · AlphaFold monomer V2.0 prediction for glycogen [starch] synthase, muscle (P13807) · 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 P46976
- Every structure of UniProt P13807
- Elsewhere: RCSB PDB 8CVZ · PDBe 8CVZ · UniProt P46976 · UniProt P13807
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