Research workbench
Crystal structure of oxyr mutant from porphyromonas gingivalis
Analyse Crystal structure of oxyr mutant from porphyromonas gingivalis in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3T22
- Type
- protein
- Length
- 839 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Redox-sensitive transcriptional activator oxyr
- UniProt
- Q20K61
- Pockets
- 11 · best druggability 0.78
Structure
x-ray diffraction · 4 distinct chains · 38% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Redox-sensitive transcriptional activator oxyr | protein | 210 | 38% helix, 27% strand | Q20K61 |
| B | Redox-sensitive transcriptional activator oxyr | protein | 207 | 39% helix, 28% strand | Q20K61 |
| C | Redox-sensitive transcriptional activator oxyr | protein | 214 | 38% helix, 26% strand | Q20K61 |
| D | Redox-sensitive transcriptional activator oxyr | protein | 208 | 37% helix, 26% strand | Q20K61 |
Pockets
11 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 926 | 0.78 | 0.81 | 74 | empty |
| 2 | 353 | 0.67 | 0.81 | 31 | empty |
| 3 | 438 | 0.62 | 0.76 | 44 | empty |
| 4 | 268 | 0.57 | 0.78 | 30 | empty |
| 5 | 226 | 0.55 | 0.77 | 21 | empty |
Interfaces
5 interfaces between chains.
- A–B · 1207 Ų buried · 16 hydrogen bonds · protein-protein
- C–D · 1197 Ų buried · 18 hydrogen bonds · protein-protein
- B–C · 336 Ų buried · 1 hydrogen bond · protein-protein
- A–C · 333 Ų buried · 0 hydrogen bonds · protein-protein
- A–D · 50 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 3T22 · Crystal structure of OxyR mutant from Porphyromonas gingivalis · the same entry in another collection · chain C against C, 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 Q20K61
- Elsewhere: RCSB PDB 3T22 · PDBe 3T22 · UniProt Q20K61
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