Research workbench
Crystal structure of the tpr domain of kinesin light chain 2 in complex with a tryptophan-acidic cargo peptide
Analyse Crystal structure of the tpr domain of kinesin light chain 2 in complex with a… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3ZFW
- Type
- protein
- Length
- 472 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Kinesin light chain 2; Pleckstrin homology domain-containing family M member 2
- UniProt
- Q91YS4, Q8IWE5
- Pockets
- 5 · best druggability 0.48
Structure
x-ray diffraction · 4 distinct chains · 74% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Kinesin light chain 2 | protein | 226 | 78% helix, 0% strand | Q91YS4 |
| B | Kinesin light chain 2 | protein | 225 | 77% helix, 0% strand | Q91YS4 |
| X | Pleckstrin homology domain-containing family M member 2 | protein | 11 | 0% helix, 0% strand | Q8IWE5 |
| Y | Pleckstrin homology domain-containing family M member 2 | protein | 10 | 0% helix, 0% strand | Q8IWE5 |
Pockets
5 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 105 | 0.48 | 0.80 | 17 | empty |
| 2 | 76 | 0.48 | 0.82 | 18 | empty |
| 3 | 103 | 0.45 | 0.79 | 17 | empty |
| 4 | 86 | 0.34 | 0.75 | 18 | empty |
| 5 | 66 | 0.30 | 0.74 | 17 | empty |
Interfaces
3 interfaces between chains.
- A–X · 808 Ų buried · 12 hydrogen bonds · protein-protein
- B–Y · 797 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 483 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 3ZFW · Crystal structure of the TPR domain of kinesin light chain 2 in complex with a… · the same entry in another collection · chain A against A, TM-score 1.00
- Q8IWE5 · AlphaFold monomer V2.0 prediction for pleckstrin homology domain- containing family M… · a predicted model of the same protein · chain Y against A, TM-score 0.35
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 Q91YS4
- Every structure of UniProt Q8IWE5
- Elsewhere: RCSB PDB 3ZFW · PDBe 3ZFW · UniProt Q91YS4 · UniProt Q8IWE5
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