Research workbench
Crystal structure of a laci-family transcriptional regulatory protein from corynebacterium glutamicum
Analyse Crystal structure of a laci-family transcriptional regulatory protein from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3GYB
- Type
- protein
- Length
- 507 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcriptional regulators (laci-family transcriptional regulatory protein)
- UniProt
- Q8NTY1
- Ligands
- MG
- Pockets
- 4 · best druggability 0.68
Structure
x-ray diffraction · 2 distinct chains · 40% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transcriptional regulators (laci-family transcriptional regulatory protein) | protein | 261 | 39% helix, 18% strand | Q8NTY1 |
| B | Transcriptional regulators (laci-family transcriptional regulatory protein) | protein | 246 | 41% helix, 17% strand | Q8NTY1 |
Ligands and binding sites
- MG · Magnesium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 186 | 0.68 | 0.87 | 34 | empty |
| 2 | 190 | 0.67 | 0.86 | 26 | empty |
| 3 | 215 | 0.61 | 0.81 | 40 | empty |
| 4 | 242 | 0.61 | 0.80 | 26 | empty |
Interfaces
1 interface between chains.
- A–B · 1824 Ų buried · 28 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 modified (engineered).
Compared structures
- 3GYB · Crystal structure of a LacI-family transcriptional regulatory protein from… · 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 Q8NTY1
- Elsewhere: RCSB PDB 3GYB · PDBe 3GYB · UniProt Q8NTY1
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.