MolNFT v2 · #3730 · protein
Dictyostelium myosin S1DC (motor domain fragment) complexed with O,P-dinitrophenyl aminopropyldiphosphate beryllium trifluoride.
1D1B: “Dictyostelium myosin S1DC (motor domain fragment) complexed with O,P-dinitrophenyl aminopropyldiphosphate…”. X-ray diffraction at 2, 2 ligands (DAQ, MG), 7 pockets (best druggability 0.85). MolNFT v2 #3730 on GenesisL1: 3D…
- PDB
- 1D1B
- Type
- protein
- Length
- 736 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2
- Source
- Dictyostelium discoideum
- Molecule
- Myosin
- UniProt
- P08799
- Ligands
- DAQ, MG
- Pockets
- 7 · best druggability 0.85
Structure
x-ray diffraction · resolution 2 · 1 distinct chain · 46% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Myosin | protein | 736 | 46% helix, 15% strand | P08799 |
Ligands and binding sites
- DAQ · O,P-dinitrophenyl aminopropyldiphosphate beryllium trifluoride · 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
7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1033 | 0.85 | 0.86 | 114 | MG, DAQ |
| 2 | 789 | 0.69 | 0.76 | 65 | empty |
| 3 | 87 | 0.64 | 0.90 | 23 | empty |
| 4 | 159 | 0.55 | 0.81 | 20 | empty |
| 5 | 61 | 0.45 | 0.83 | 16 | empty |
Compared structures
- 1D1B · Dictyostelium myosin S1DC (motor domain fragment) complexed with O,P- dinitrophenyl… · 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 1D1B · PDBe 1D1B · UniProt P08799
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.