Research workbench
Crystal structure of myosin V motor with essential light chain - nucleotide-free
Analyse Crystal structure of myosin V motor with essential light chain - nucleotide-free in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1OE9
- Type
- protein
- Length
- 869 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Myosin va; Myosin light chain 1, slow-twitch muscle a isoform
- UniProt
- Q02440, P14649
- Ligands
- SO4
- Pockets
- 11 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 51% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Myosin va | protein | 730 | 49% helix, 17% strand | Q02440 |
| B | Myosin light chain 1, slow-twitch muscle a isoform | protein | 139 | 60% helix, 9% strand | P14649 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 679 | 0.74 | 0.80 | 59 | empty |
| 2 | 522 | 0.74 | 0.82 | 81 | SO4 |
| 3 | 363 | 0.63 | 0.78 | 40 | empty |
| 4 | 155 | 0.53 | 0.80 | 25 | empty |
| 5 | 134 | 0.46 | 0.78 | 26 | empty |
Interfaces
1 interface between chains.
- A–B · 1473 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 1OE9 · Crystal structure of Myosin V motor with essential light chain-nucleotide-free · the same entry in another collection · chain A against A, TM-score 1.00
- P14649 · AlphaFold monomer V2.0 prediction for myosin light chain 6B (P14649) · a predicted model of the same protein · chain B against A, TM-score 0.97
- Q02440 · AlphaFold monomer V2.0 prediction for unconventional myosin-va (Q02440) · a predicted model of the same protein · chain A against A, TM-score 0.94
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 Q02440
- Every structure of UniProt P14649
- Elsewhere: RCSB PDB 1OE9 · PDBe 1OE9 · UniProt Q02440 · UniProt P14649
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