Research workbench
Structure of effector binding domain of central glycolytic gene regulator (cggr) from B. subtilis
Analyse Structure of effector binding domain of central glycolytic gene regulator… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2OKG
- Type
- protein
- Length
- 500 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Central glycolytic gene regulator
- UniProt
- O32253
- Ligands
- G3H, CL
- Pockets
- 7 · best druggability 0.77
Structure
x-ray diffraction · 2 distinct chains · 45% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Central glycolytic gene regulator | protein | 249 | 45% helix, 22% strand | O32253 |
| B | Central glycolytic gene regulator | protein | 251 | 45% helix, 18% strand | O32253 |
Ligands and binding sites
- G3H · Glyceraldehyde-3-phosphate · ligand · chains B
- CL · Chloride ion · ion · 3 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 88 | 0.77 | 0.98 | 19 | empty |
| 2 | 181 | 0.67 | 0.86 | 44 | G3H |
| 3 | 366 | 0.63 | 0.78 | 49 | CL |
| 4 | 198 | 0.46 | 0.74 | 25 | CL |
| 5 | 71 | 0.41 | 0.80 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 930 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 modified (engineered).
Compared structures
- 2OKG · Structure of effector binding domain of central glycolytic gene regulator (CggR) from B.… · the same entry in another collection · chain A against A, TM-score 1.00
- O32253 · AlphaFold monomer V2.0 prediction for central glycolytic genes regulator (O32253) · a predicted model of the same protein · chain B against A, TM-score 0.97
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 O32253
- Elsewhere: RCSB PDB 2OKG · PDBe 2OKG · UniProt O32253
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.