Research workbench
Crystal structure of human 14-3-3 sigma in complex with LRRK2 peptide pS935
Analyse Crystal structure of human 14-3-3 sigma in complex with LRRK2 peptide pS935 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5MY9
- Type
- protein
- Length
- 240 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.327
- Source
- Homo sapiens; SYNTHETIC CONSTRUCT
- Molecule
- 14-3-3 protein sigma; Leucine-rich repeat serine/threonine-protein kinase 2
- EC
- 2.7.11.1
- UniProt
- P31947, Q5S007
- Ligands
- CA, CL
- Pockets
- 1 · best druggability 0.48
Structure
x-ray diffraction · resolution 1.327 · 2 distinct chains · 78% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 14-3-3 protein sigma | protein | 236 | 79% helix, 0% strand | P31947 |
| P | Leucine-rich repeat serine/threonine-protein kinase 2 (EC 2.7.11.1) | protein | 4 | 0% helix, 0% strand | Q5S007 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 137 | 0.48 | 0.78 | 24 | empty |
Interfaces
1 interface between chains.
- A–P · 443 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (phosphorylation).
Compared structures
- 5MY9 · Crystal structure of human 14-3-3 sigma in complex with LRRK2 peptide PS935 · the same entry in another collection · chain A against A, TM-score 1.00
- Q5S007 · AlphaFold monomer V2.0 prediction for leucine-rich repeat SERINE/THREONINE-protein kinase… · a predicted model of the same protein · chain P against A, TM-score 0.97
- P31947 · AlphaFold monomer V2.0 prediction for 14-3-3 protein sigma (P31947) · a predicted model of the same protein · chain A against A, TM-score 0.95
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 P31947
- Every structure of UniProt Q5S007
- Elsewhere: RCSB PDB 5MY9 · PDBe 5MY9 · UniProt P31947 · UniProt Q5S007
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