Research workbench
Dntr inducer binding domain
Analyse Dntr inducer binding domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2Y7R
- Type
- protein
- Length
- 1,692 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lysr-type regulatory protein
- UniProt
- Q7WT50
- Pockets
- 16 · best druggability 0.82
Structure
x-ray diffraction · 3 distinct chains · 35% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, D, E, H | Lysr-type regulatory protein | protein | 212 | 35% helix, 27% strand | Q7WT50 |
| C | Lysr-type regulatory protein | protein | 210 | 38% helix, 28% strand | Q7WT50 |
| F, G | Lysr-type regulatory protein | protein | 211 | 32% helix, 28% strand | Q7WT50 |
Pockets
16 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 775 | 0.82 | 0.85 | 110 | empty |
| 2 | 643 | 0.78 | 0.83 | 85 | empty |
| 3 | 636 | 0.76 | 0.82 | 64 | empty |
| 4 | 440 | 0.75 | 0.85 | 56 | empty |
| 5 | 600 | 0.72 | 0.80 | 65 | empty |
Interfaces
17 interfaces between chains.
- A–E · 1540 Ų buried · 13 hydrogen bonds · protein-protein
- D–H · 1491 Ų buried · 10 hydrogen bonds · protein-protein
- C–G · 1474 Ų buried · 9 hydrogen bonds · protein-protein
- B–F · 1445 Ų buried · 8 hydrogen bonds · protein-protein
- A–C · 415 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 2Y7R · DntR Inducer Binding Domain · 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 Q7WT50
- Elsewhere: RCSB PDB 2Y7R · PDBe 2Y7R · UniProt Q7WT50
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