MolNFT v1 · #7932 · protein
Escherichia COLI glycerol kinase mutant with bound ATP analog showing substantial domain motion
1GLJ: “Escherichia COLI glycerol kinase mutant with bound ATP analog showing substantial domain motion”. X-ray diffraction, 2 ligands (ATS, MG), 5 pockets (best druggability 0.70). MolNFT v1 #7932 on GenesisL1: 3D structure, binding sites…
- PDB
- 1GLJ
- Type
- protein
- Length
- 988 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glycerol kinase
- EC
- 2.7.1.30
- UniProt
- P0A6F3
- Ligands
- ATS, MG
- Pockets
- 5 · best druggability 0.70
Structure
x-ray diffraction · 1 distinct chain · 35% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| Y, O | Glycerol kinase (EC 2.7.1.30) | protein | 494 | 35% helix, 23% strand | P0A6F3 |
Ligands and binding sites
- ATS · Gamma-arsono-beta, gamma-methyleneadenosine-5'-diphosphate · ligand · 2 copies · chains Y, O
- MG · Magnesium ion · metal · chains Y
- GOL · Glycerol · additive · 2 copies · chains Y, O
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 459 | 0.70 | 0.81 | 47 | MG, ATS, GOL |
| 2 | 500 | 0.70 | 0.80 | 50 | ATS, GOL |
| 3 | 380 | 0.62 | 0.77 | 57 | empty |
| 4 | 207 | 0.51 | 0.76 | 31 | empty |
| 5 | 50 | 0.30 | 0.76 | 17 | empty |
Interfaces
1 interface between chains.
- Y–O · 1646 Ų buried · 26 hydrogen bonds · protein-protein
Compared structures
- 1GLJ · Escherichia COLI glycerol kinase mutant with bound ATP analog showing substantial domain… · the same entry in another collection · chain Y against Y, TM-score 1.00
- P0A6F3 · AlphaFold monomer V2.0 prediction for glycerol kinase (P0A6F3) · a predicted model of the same protein · chain Y 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 P0A6F3
- Elsewhere: RCSB PDB 1GLJ · PDBe 1GLJ · UniProt P0A6F3
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.