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The structure of a glutathione synthetase like-effector (GSS30) from globodera pallida in apoform.
Analyse The structure of a glutathione synthetase like-effector (GSS30) from globodera… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5OET
- Type
- protein
- Length
- 831 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glutathione synthetase-like effector 30 (gpa-GSS30-apo)
- EC
- 6.3.2.3
- Ligands
- MG
- Pockets
- 13 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 34% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Glutathione synthetase-like effector 30 (gpa-GSS30-apo) (EC 6.3.2.3) | protein | 420 | 34% helix, 30% strand | — |
| A | Glutathione synthetase-like effector 30 (gpa-GSS30-apo) (EC 6.3.2.3) | protein | 411 | 33% helix, 31% strand | — |
Ligands and binding sites
- MG · Magnesium ion · metal · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 625 | 0.71 | 0.79 | 90 | empty |
| 2 | 269 | 0.68 | 0.84 | 35 | empty |
| 3 | 228 | 0.67 | 0.84 | 33 | empty |
| 4 | 279 | 0.64 | 0.81 | 34 | empty |
| 5 | 137 | 0.57 | 0.82 | 22 | empty |
Interfaces
1 interface between chains.
- B–A · 1568 Ų buried · 30 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 5OET · The structure of a glutathione synthetase like-effector (GSS30) from Globodera pallida in… · the same entry in another collection · chain B against B, 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
- Elsewhere: RCSB PDB 5OET · PDBe 5OET
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