MolNFT v1 · #14843 · protein
Truncated head of myosin from dictyostelium discoideum complexed with mgadp-BEF3
1MMD: “Truncated head of myosin from dictyostelium discoideum complexed with mgadp-BEF3”. X-ray diffraction, 3 ligands (ADP, BEF, MG), 6 pockets (best druggability 0.84). MolNFT v1 #14843 on GenesisL1: 3D structure, binding sites and…
- PDB
- 1MMD
- Type
- protein
- Length
- 743 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Myosin
- EC
- 3.6.1.32
- UniProt
- P08799
- Ligands
- ADP, BEF, MG
- Pockets
- 6 · best druggability 0.84
Structure
x-ray diffraction · 1 distinct chain · 47% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Myosin (EC 3.6.1.32) | protein | 743 | 47% helix, 15% strand | P08799 |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · chains A
- BEF · Beryllium trifluoride ion · ligand · chains A
- MG · Magnesium ion · metal · 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, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 942 | 0.84 | 0.86 | 111 | MG, ADP, BEF |
| 2 | 997 | 0.73 | 0.76 | 74 | empty |
| 3 | 99 | 0.50 | 0.82 | 20 | empty |
| 4 | 97 | 0.46 | 0.80 | 18 | empty |
| 5 | 72 | 0.31 | 0.75 | 15 | empty |
Compared structures
- 1MMD · Truncated head of myosin from dictyostelium discoideum complexed with mgadp-BEF3 · 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 0.89
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 1MMD · PDBe 1MMD · UniProt P08799
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