Research workbench
Crystal structure of YetJ mutant from Bacillus Subtilis - D195E
Analyse Crystal structure of YetJ mutant from Bacillus Subtilis - D195E in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6NQ9
- Type
- protein
- Length
- 825 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.1
- Source
- Bacillus subtilis (strain 168)
- Molecule
- Uncharacterized protein YetJ
- UniProt
- O31539
- Pockets
- 14 · best druggability 0.74
Structure
x-ray diffraction · resolution 3.1 · 3 distinct chains · 84% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Uncharacterized protein YetJ | protein | 208 | 83% helix, 0% strand | O31539 |
| B, D | Uncharacterized protein YetJ | protein | 207 | 84% helix, 0% strand | O31539 |
| C | Uncharacterized protein YetJ | protein | 203 | 84% helix, 0% strand | O31539 |
Pockets
14 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 365 | 0.74 | 0.84 | 33 | empty |
| 2 | 437 | 0.74 | 0.83 | 48 | empty |
| 3 | 654 | 0.71 | 0.78 | 44 | empty |
| 4 | 858 | 0.71 | 0.76 | 58 | empty |
| 5 | 340 | 0.69 | 0.82 | 35 | empty |
Interfaces
5 interfaces between chains.
- C–D · 918 Ų buried · 3 hydrogen bonds · protein-protein
- A–B · 871 Ų buried · 3 hydrogen bonds · protein-protein
- B–D · 459 Ų buried · 3 hydrogen bonds · protein-protein
- B–C · 395 Ų buried · 0 hydrogen bonds · protein-protein
- A–C · 18 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6NQ9 · Crystal structure of yetj mutant from bacillus subtilis - D195E · the same entry in another collection · chain A against A, TM-score 1.00
- O31539 · AlphaFold monomer V2.0 prediction for uncharacterized protein yetj (O31539) · a predicted model of the same protein · chain C against A, TM-score 0.96
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 O31539
- Elsewhere: RCSB PDB 6NQ9 · PDBe 6NQ9 · UniProt O31539
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