Research workbench
Insights into dynein assembly from a dynein intermediate chain-light chain roadblock structure
Analyse Insights into dynein assembly from a dynein intermediate chain-light chain… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3L9K
- Type
- protein
- Length
- 532 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RE64145P; Dynein intermediate chain, cytosolic
- UniProt
- Q7KMS3, Q24246
- Pockets
- 5 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 46% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | RE64145P | protein | 95 | 35% helix, 32% strand | Q7KMS3 |
| W, X, Y, Z | Dynein intermediate chain, cytosolic | protein | 38 | 74% helix, 0% strand | Q24246 |
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 905 | 0.71 | 0.76 | 89 | empty |
| 2 | 154 | 0.44 | 0.75 | 32 | empty |
| 3 | 82 | 0.37 | 0.77 | 15 | empty |
| 4 | 72 | 0.33 | 0.75 | 18 | empty |
| 5 | 61 | 0.33 | 0.77 | 13 | empty |
Interfaces
17 interfaces between chains.
- A–B · 1314 Ų buried · 23 hydrogen bonds · protein-protein
- C–W · 1301 Ų buried · 9 hydrogen bonds · protein-protein
- D–X · 1298 Ų buried · 8 hydrogen bonds · protein-protein
- C–D · 1297 Ų buried · 25 hydrogen bonds · protein-protein
- B–Z · 1296 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 3L9K · Insights into dynein assembly from a dynein intermediate chain-light chain roadblock… · the same entry in another collection · chain Z against Z, TM-score 1.00
- Q24246 · AlphaFold monomer V2.0 prediction for cytoplasmic dynein 1 intermediate chain (Q24246) · a predicted model of the same protein · chain Z against A, TM-score 0.73
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 Q7KMS3
- Every structure of UniProt Q24246
- Elsewhere: RCSB PDB 3L9K · PDBe 3L9K · UniProt Q7KMS3 · UniProt Q24246
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