MolNFT v1 · #68421 · protein
Crystal structure of putative transcription regulation repressor (laci family) from corynebacterium glutamicum
3JVD · Transcriptional regulators: “Crystal structure of putative transcription regulation repressor (laci family) from corynebacterium glutamicum”. X-ray diffraction, 1 ligand (SO4), 6 pockets (best druggability 0.71). MolNFT v1 #68421 on…
- PDB
- 3JVD
- Type
- protein
- Length
- 513 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcriptional regulators
- UniProt
- Q8NNY3
- Ligands
- SO4
- Pockets
- 6 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 42% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transcriptional regulators | protein | 255 | 43% helix, 22% strand | Q8NNY3 |
| B | Transcriptional regulators | protein | 258 | 41% helix, 22% strand | Q8NNY3 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 494 | 0.71 | 0.81 | 44 | empty |
| 2 | 218 | 0.63 | 0.82 | 27 | empty |
| 3 | 173 | 0.55 | 0.80 | 25 | empty |
| 4 | 152 | 0.41 | 0.74 | 22 | empty |
| 5 | 50 | 0.34 | 0.78 | 12 | empty |
Interfaces
1 interface between chains.
- A–B · 1391 Ų buried · 18 hydrogen bonds · protein-protein
Compared structures
- 3JVD · Crystal structure of putative transcription regulation repressor (LACI family) 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 Q8NNY3
- Elsewhere: RCSB PDB 3JVD · PDBe 3JVD · UniProt Q8NNY3
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