Research workbench
Gamma-glutamyltranspeptidase from pseudomonas nitroreducens complexed with L-don
Analyse Gamma-glutamyltranspeptidase from pseudomonas nitroreducens complexed with L-don in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7D9E
- Type
- protein
- Length
- 530 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Gamma-glutamyltransferase 1 threonine peptidase. merops family T03
- UniProt
- A0A239KXH0
- Ligands
- DON
- Pockets
- 2 · best druggability 0.65
Structure
x-ray diffraction · 2 distinct chains · 39% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Gamma-glutamyltransferase 1 threonine peptidase. merops family T03 | protein | 337 | 50% helix, 12% strand | A0A239KXH0 |
| B | Gamma-glutamyltransferase 1 threonine peptidase. merops family T03 | protein | 193 | 19% helix, 30% strand | A0A239KXH0 |
Ligands and binding sites
- DON · 6-diazenyl-5-oxo-L-norleucine · ligand · chains A, B
- GOL · Glycerol · additive · 2 copies · chains A, B
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 | 242 | 0.65 | 0.83 | 33 | empty |
| 2 | 61 | 0.41 | 0.80 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 5870 Ų buried · 108 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 covalent (covalent ligand).
Compared structures
- 7D9E · Gamma-glutamyltranspeptidase from Pseudomonas nitroreducens complexed with L-DON · 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 A0A239KXH0
- Elsewhere: RCSB PDB 7D9E · PDBe 7D9E · UniProt A0A239KXH0
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.