Research workbench
The structure of a yeast dynein DYN2-PAC11 complex and effect on single molecule dynein motor activity
Analyse The structure of a yeast dynein DYN2-PAC11 complex and effect on single… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4HT6
- Type
- protein
- Length
- 291 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dynein light chain 1, cytoplasmic; Wd repeat-containing protein PAC11
- UniProt
- Q02647, P40960
- Pockets
- 2 · best druggability 0.33
Structure
x-ray diffraction · 2 distinct chains · 34% helix, 45% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E | Dynein light chain 1, cytoplasmic | protein | 86 | 38% helix, 43% strand | Q02647 |
| B, D, F | Wd repeat-containing protein PAC11 | protein | 11 | 0% helix, 64% strand | P40960 |
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 96 | 0.33 | 0.73 | 19 | empty |
| 2 | 60 | 0.29 | 0.74 | 18 | empty |
Interfaces
10 interfaces between chains.
- A–C · 928 Ų buried · 31 hydrogen bonds · protein-protein
- E–F · 730 Ų buried · 19 hydrogen bonds · protein-protein
- C–D · 700 Ų buried · 18 hydrogen bonds · protein-protein
- A–B · 691 Ų buried · 19 hydrogen bonds · protein-protein
- A–E · 277 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 4HT6 · The Structure of a Yeast Dynein Dyn2-Pac11 Complex and Effect on Single Molecule Dynein… · the same entry in another collection · chain F against F, TM-score 1.00
- Q02647 · AlphaFold monomer V2.0 prediction for dynein light chain 1, cytoplasmic (Q02647) · a predicted model of the same protein · chain C against A, TM-score 0.98
- P40960 · AlphaFold monomer V2.0 prediction for wd repeat-containing protein PAC11 (P40960) · a predicted model of the same protein · chain B against A, TM-score 0.51
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 Q02647
- Every structure of UniProt P40960
- Elsewhere: RCSB PDB 4HT6 · PDBe 4HT6 · UniProt Q02647 · UniProt P40960
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