Research workbench
Structure of the central plant immunity signaling node EDS1 in complex with its interaction partner SAG101
Analyse Structure of the central plant immunity signaling node EDS1 in complex with its… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4NFU
- Type
- protein
- Length
- 1,143 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- EDS1; Senescence-associated carboxylesterase 101
- EC
- 3.-.-.-, 3.1.1.1
- UniProt
- Q9XF23, Q4F883
- Ligands
- BGC
- Pockets
- 18 · best druggability 0.79
Structure
x-ray diffraction · 2 distinct chains · 58% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | EDS1 (EC 3.-.-.-) | protein | 619 | 58% helix, 9% strand | Q9XF23 |
| B | Senescence-associated carboxylesterase 101 (EC 3.1.1.1) | protein | 524 | 57% helix, 11% strand | Q4F883 |
Ligands and binding sites
- BGC · beta-D-glucopyranose · sugar · chains A
- IPA · Isopropyl alcohol · additive · 3 copies · chains A, B
- EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
18 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 710 | 0.79 | 0.83 | 60 | empty |
| 2 | 467 | 0.73 | 0.82 | 47 | empty |
| 3 | 736 | 0.71 | 0.77 | 69 | BGC |
| 4 | 201 | 0.70 | 0.87 | 40 | empty |
| 5 | 98 | 0.64 | 0.89 | 24 | empty |
Interfaces
1 interface between chains.
- A–B · 2222 Ų buried · 25 hydrogen bonds · protein-protein
Compared structures
- 4NFU · Structure of the central plant immunity signaling node EDS1 in complex with its… · the same entry in another collection · chain A against A, TM-score 1.00
- Q4F883 · AlphaFold monomer V2.0 prediction for senescence-associated carboxylesterase 101 (Q4F883) · a predicted model of the same protein · chain B against A, TM-score 0.99
- Q9XF23 · AlphaFold monomer V2.0 prediction for protein EDS1L (Q9XF23) · 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 Q9XF23
- Every structure of UniProt Q4F883
- Elsewhere: RCSB PDB 4NFU · PDBe 4NFU · UniProt Q9XF23 · UniProt Q4F883
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