Research workbench
Structural and biochemical studies identify tobacco SABP2 as a methylsalicylate esterase and further implicate it in plant innate immunity, northeast structural genomics target AR2241
Analyse Structural and biochemical studies identify tobacco SABP2 as a methylsalicylate… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1Y7I
- Type
- protein
- Length
- 520 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Salicylic acid-binding protein 2
- UniProt
- Q6RYA0
- Ligands
- SAL
- Pockets
- 5 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 43% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Salicylic acid-binding protein 2 | protein | 258 | 42% helix, 17% strand | Q6RYA0 |
| B | Salicylic acid-binding protein 2 | protein | 262 | 43% helix, 16% strand | Q6RYA0 |
Ligands and binding sites
- SAL · 2-hydroxybenzoic acid · ligand · 3 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 65 | 0.73 | 0.98 | 19 | SAL |
| 2 | 61 | 0.73 | 0.98 | 20 | SAL |
| 3 | 66 | 0.36 | 0.78 | 14 | empty |
| 4 | 88 | 0.33 | 0.74 | 25 | empty |
| 5 | 59 | 0.28 | 0.74 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 868 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 18 modified (engineered).
Compared structures
- 1Y7I · Structural and biochemical studies identify tobacco SABP2 as a methylsalicylate esterase… · the same entry in another collection · chain A against A, TM-score 1.00
- Q6RYA0 · AlphaFold monomer V2.0 prediction for salicylic acid-binding protein 2 (Q6RYA0) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q6RYA0
- Elsewhere: RCSB PDB 1Y7I · PDBe 1Y7I · UniProt Q6RYA0
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