Research workbench
Human dynein light chain (DYNLL2) in complex with an in vitro evolved peptide dimerized by leucine zipper
Analyse Human dynein light chain (DYNLL2) in complex with an in vitro evolved peptide… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3P8M
- Type
- protein
- Length
- 259 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dynein light chain 2; General control protein GCN4
- UniProt
- Q96FJ2, P03069
- Pockets
- 1 · best druggability 0.41
Structure
x-ray diffraction · 3 distinct chains · 52% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Dynein light chain 2 | protein | 87 | 38% helix, 43% strand | Q96FJ2 |
| D | General control protein GCN4 | protein | 43 | 65% helix, 14% strand | P03069 |
| C | General control protein GCN4 | protein | 42 | 69% helix, 14% strand | P03069 |
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 153 | 0.41 | 0.74 | 32 | empty |
Interfaces
6 interfaces between chains.
- A–B · 933 Ų buried · 26 hydrogen bonds · protein-protein
- D–C · 833 Ų buried · 1 hydrogen bond · protein-protein
- A–D · 639 Ų buried · 17 hydrogen bonds · protein-protein
- B–C · 635 Ų buried · 21 hydrogen bonds · protein-protein
- A–C · 211 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 3P8M · Human dynein light chain (DYNLL2) in complex with an in vitro evolved peptide dimerized… · the same entry in another collection · chain A against A, TM-score 1.00
- Q96FJ2 · AlphaFold monomer V2.0 prediction for dynein light chain 2, cytoplasmic (Q96FJ2) · a predicted model of the same protein · chain A against A, TM-score 0.97
- P03069 · AlphaFold monomer V2.0 prediction for general control transcription factor GCN4 (P03069) · a predicted model of the same protein · chain C against A, TM-score 0.69
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 Q96FJ2
- Every structure of UniProt P03069
- Elsewhere: RCSB PDB 3P8M · PDBe 3P8M · UniProt Q96FJ2 · UniProt P03069
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