Research workbench
E. COLI glucosamine-6-P synthase in complex with glucose-6P and 5-oxo-L-norleucine
Analyse E. COLI glucosamine-6-P synthase in complex with glucose-6P and… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2J6H
- Type
- protein
- Length
- 1,216 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glucosamine-fructose-6-phosphate aminotransferase
- EC
- 2.6.1.16
- UniProt
- P17169
- Ligands
- ONL, G6Q
- Pockets
- 15 · best druggability 0.87
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Glucosamine-fructose-6-phosphate aminotransferase (EC 2.6.1.16) | protein | 608 | 40% helix, 23% strand | P17169 |
Ligands and binding sites
- ONL · 5-oxo-L-norleucine · ligand · 2 copies · chains A, B
- G6Q · Glucose-6-phosphate · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
15 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 625 | 0.87 | 0.92 | 66 | empty |
| 2 | 124 | 0.79 | 0.97 | 26 | G6Q |
| 3 | 118 | 0.77 | 0.97 | 25 | G6Q |
| 4 | 296 | 0.68 | 0.83 | 41 | empty |
| 5 | 279 | 0.66 | 0.82 | 38 | empty |
Interfaces
1 interface between chains.
- A–B · 3688 Ų buried · 87 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 covalent (covalent ligand).
Compared structures
- 2J6H · E. coli glucosamine-6-P synthase in complex with glucose-6P and 5-oxo- L-norleucine · the same entry in another collection · chain A against A, TM-score 1.00
- P17169 · AlphaFold monomer V2.0 prediction for glutamine--fructose-6-phosphate aminotransferase… · a predicted model of the same protein · chain B against A, TM-score 0.94
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 P17169
- Elsewhere: RCSB PDB 2J6H · PDBe 2J6H · UniProt P17169
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