Research workbench
Crystal structure of the transcriptional factor CGL2915 from corynebacterium glutamicum
Analyse Crystal structure of the transcriptional factor CGL2915 from corynebacterium… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2DI3
- Type
- protein
- Length
- 461 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bacterial regulatory proteins, gntr family
- UniProt
- Q8NLM6
- Ligands
- ZN
- Pockets
- 4 · best druggability 0.59
Structure
x-ray diffraction · 2 distinct chains · 70% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Bacterial regulatory proteins, gntr family | protein | 231 | 69% helix, 3% strand | Q8NLM6 |
| B | Bacterial regulatory proteins, gntr family | protein | 230 | 71% helix, 3% strand | Q8NLM6 |
Ligands and binding sites
- ZN · Zinc 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 448 | 0.59 | 0.75 | 45 | empty |
| 2 | 158 | 0.41 | 0.73 | 20 | empty |
| 3 | 70 | 0.32 | 0.75 | 14 | empty |
| 4 | 70 | 0.30 | 0.73 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 2072 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 2DI3 · Crystal structure of the transcriptional factor CGL2915 from Corynebacterium glutamicum · 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 Q8NLM6
- Elsewhere: RCSB PDB 2DI3 · PDBe 2DI3 · UniProt Q8NLM6
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