MolNFT v1 · #25351 · protein
Complex between dictyostelium myosin and mgadp and vanadate at 1.9A resolution
1VOM: “Complex between dictyostelium myosin and mgadp and vanadate at 1.9A resolution”. X-ray diffraction, 3 ligands (ADP, MG, VO4), 6 pockets (best druggability 0.78). MolNFT v1 #25351 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 1VOM
- Type
- protein
- Length
- 730 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Myosin
- UniProt
- P08799
- Ligands
- ADP, MG, VO4
- Pockets
- 6 · best druggability 0.78
Structure
x-ray diffraction · 1 distinct chain · 45% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Myosin | protein | 730 | 45% helix, 17% strand | P08799 |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · chains A
- MG · Magnesium ion · metal · chains A
- VO4 · Vanadate ion · ion · chains A
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 | 922 | 0.78 | 0.80 | 77 | empty |
| 2 | 568 | 0.71 | 0.80 | 68 | MG, VO4, ADP |
| 3 | 311 | 0.59 | 0.77 | 30 | empty |
| 4 | 80 | 0.43 | 0.80 | 15 | empty |
| 5 | 55 | 0.32 | 0.77 | 13 | empty |
Compared structures
- 1VOM · Complex between dictyostelium myosin and mgadp and vanadate at 1.9A resolution · the same entry in another collection · chain A against A, TM-score 1.00
- P08799 · AlphaFold monomer V2.0 prediction for myosin-2 heavy chain (P08799) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 P08799
- Elsewhere: RCSB PDB 1VOM · PDBe 1VOM · UniProt P08799
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