Research workbench
Receptor mediated chitin perception in legumes is functionally seperable from nod factor perception
Analyse Receptor mediated chitin perception in legumes is functionally seperable from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5LS2
- Type
- protein
- Length
- 391 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lysm type receptor kinase
- UniProt
- D3KTZ6
- Ligands
- NAG, SO4
- Pockets
- 4 · best druggability 0.63
Structure
x-ray diffraction · 2 distinct chains · 22% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Lysm type receptor kinase | protein | 195 | 21% helix, 27% strand | D3KTZ6 |
| B | Lysm type receptor kinase | protein | 196 | 24% helix, 27% strand | D3KTZ6 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 12 copies · chains A, B
- SO4 · Sulfate ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 248 | 0.63 | 0.81 | 29 | empty |
| 2 | 264 | 0.60 | 0.79 | 27 | empty |
| 3 | 369 | 0.58 | 0.76 | 45 | SO4 |
| 4 | 231 | 0.51 | 0.76 | 38 | empty |
Interfaces
1 interface between chains.
- A–B · 552 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide, 6 glycan (disulfide, N-glycosylation).
Compared structures
- 5LS2 · Receptor mediated chitin perception in legumes is functionally seperable from Nod factor… · the same entry in another collection · chain A against A, TM-score 1.00
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 D3KTZ6
- Elsewhere: RCSB PDB 5LS2 · PDBe 5LS2 · UniProt D3KTZ6
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