Research workbench
Crystal structure of pathogenesis-related protein llpr-10.2A from yellow lupine
Analyse Crystal structure of pathogenesis-related protein llpr-10.2A from yellow lupine in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1XDF
- Type
- protein
- Length
- 314 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- PR10.2A
- UniProt
- Q9LLQ3
- Ligands
- NA
- Pockets
- 2 · best druggability 0.55
Structure
x-ray diffraction · 1 distinct chain · 28% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | PR10.2A | protein | 157 | 28% helix, 44% strand | Q9LLQ3 |
Ligands and binding sites
- NA · Sodium ion · metal · chains A
- EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 250 | 0.55 | 0.77 | 27 | empty |
| 2 | 118 | 0.38 | 0.75 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 506 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 1XDF · Crystal structure of pathogenesis-related protein LlPR-10.2A from yellow lupine · the same entry in another collection · chain A against A, TM-score 1.00
- Q9LLQ3 · AlphaFold monomer V2.0 prediction for class 10 plant pathogenesis- related protein 2A… · a predicted model of the same protein · chain A against A, TM-score 0.85
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 Q9LLQ3
- Elsewhere: RCSB PDB 1XDF · PDBe 1XDF · UniProt Q9LLQ3
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