Research workbench
Crystal structure of a transcription regulator from lactobacillus plantarum
Analyse Crystal structure of a transcription regulator from lactobacillus plantarum in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3CLK
- Type
- protein
- Length
- 513 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcription regulator
- UniProt
- Q88S23
- Pockets
- 6 · best druggability 0.75
Structure
x-ray diffraction · 2 distinct chains · 41% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transcription regulator | protein | 251 | 39% helix, 19% strand | Q88S23 |
| B | Transcription regulator | protein | 262 | 42% helix, 18% strand | Q88S23 |
Ligands and binding sites
- GOL · Glycerol · additive · chains A
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 | 662 | 0.75 | 0.81 | 54 | empty |
| 2 | 217 | 0.63 | 0.82 | 29 | GOL |
| 3 | 135 | 0.51 | 0.80 | 26 | empty |
| 4 | 70 | 0.48 | 0.83 | 17 | empty |
| 5 | 95 | 0.47 | 0.81 | 22 | empty |
Interfaces
1 interface between chains.
- A–B · 1157 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 modified (engineered).
Compared structures
- 3CLK · Crystal structure of a transcription regulator from Lactobacillus plantarum · 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 Q88S23
- Elsewhere: RCSB PDB 3CLK · PDBe 3CLK · UniProt Q88S23
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