Research workbench
Structure of qacr multidrug transcriptional regulator bound to bivalent diamidine berenil
Analyse Structure of qacr multidrug transcriptional regulator bound to bivalent… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2GBY
- Type
- protein
- Length
- 744 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hth-type transcriptional regulator qacr
- UniProt
- P0A0N4
- Ligands
- BRN, SO4
- Pockets
- 7 · best druggability 0.83
Structure
x-ray diffraction · 1 distinct chain · 71% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, D, A, E | Hth-type transcriptional regulator qacr | protein | 186 | 71% helix, 0% strand | P0A0N4 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 571 | 0.83 | 0.88 | 43 | BRN |
| 2 | 853 | 0.77 | 0.81 | 87 | SO4 |
| 3 | 62 | 0.71 | 0.97 | 21 | empty |
| 4 | 58 | 0.65 | 0.94 | 17 | empty |
| 5 | 133 | 0.53 | 0.81 | 26 | empty |
Interfaces
3 interfaces between chains.
- B–A · 1649 Ų buried · 12 hydrogen bonds · protein-protein
- D–E · 1599 Ų buried · 15 hydrogen bonds · protein-protein
- A–E · 433 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 2GBY · Structure of QacR Multidrug Transcriptional Regulator Bound to Bivalent Diamidine Berenil · the same entry in another collection · chain B against B, TM-score 1.00
- P0A0N4 · AlphaFold monomer V2.0 prediction for hth-type transcriptional regulator qacr (P0A0N4) · a predicted model of the same protein · chain B against A, TM-score 0.98
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 P0A0N4
- Elsewhere: RCSB PDB 2GBY · PDBe 2GBY · UniProt P0A0N4
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