Research workbench
Structure of the R. erythropolis transcriptional repressor qsdr from tetr family
Analyse Structure of the R. erythropolis transcriptional repressor qsdr from tetr family in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4ZA6
- Type
- protein
- Length
- 376 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tetr family transcriptional regulator
- UniProt
- A0A0C2W9F0
- Ligands
- CA
- Pockets
- 5 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 75% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Tetr family transcriptional regulator | protein | 188 | 75% helix, 0% strand | A0A0C2W9F0 |
Ligands and binding sites
- CA · Calcium ion · metal · 2 copies · chains A, B
- MPD · (4S)-2-methyl-2,4-pentanediol · additive · 6 copies · chains A, B
- ACT · Acetate ion · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 163 | 0.73 | 0.90 | 29 | MPD |
| 2 | 348 | 0.70 | 0.82 | 42 | MPD |
| 3 | 98 | 0.51 | 0.82 | 16 | empty |
| 4 | 79 | 0.51 | 0.84 | 14 | empty |
| 5 | 54 | 0.25 | 0.73 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 367 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 4ZA6 · Structure of the R. erythropolis transcriptional repressor QsdR from TetR family · 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 A0A0C2W9F0
- Elsewhere: RCSB PDB 4ZA6 · PDBe 4ZA6 · UniProt A0A0C2W9F0
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