Research workbench
Crystal structure of a virulence factor (CJ0248) from campylobacter jejuni subsp. jejuni at 2.25 a resolution
Analyse Crystal structure of a virulence factor (CJ0248) from campylobacter jejuni… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1VQR
- Type
- protein
- Length
- 1,101 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hypothetical protein CJ0248
- UniProt
- Q9PIP7
- Pockets
- 19 · best druggability 0.70
Structure
x-ray diffraction · 4 distinct chains · 70% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hypothetical protein CJ0248 | protein | 284 | 69% helix, 0% strand | Q9PIP7 |
| B | Hypothetical protein CJ0248 | protein | 269 | 71% helix, 0% strand | Q9PIP7 |
| C | Hypothetical protein CJ0248 | protein | 281 | 70% helix, 0% strand | Q9PIP7 |
| D | Hypothetical protein CJ0248 | protein | 267 | 72% helix, 0% strand | Q9PIP7 |
Pockets
19 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 872 | 0.70 | 0.75 | 95 | empty |
| 2 | 209 | 0.56 | 0.79 | 26 | empty |
| 3 | 144 | 0.50 | 0.79 | 17 | empty |
| 4 | 183 | 0.50 | 0.77 | 29 | empty |
| 5 | 141 | 0.50 | 0.79 | 21 | empty |
Interfaces
5 interfaces between chains.
- C–D · 690 Ų buried · 13 hydrogen bonds · protein-protein
- A–B · 681 Ų buried · 8 hydrogen bonds · protein-protein
- B–C · 272 Ų buried · 6 hydrogen bonds · protein-protein
- A–D · 205 Ų buried · 5 hydrogen bonds · protein-protein
- A–C · 58 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 22 modified (engineered).
Compared structures
- 1VQR · Crystal structure of a virulence factor (cj0248) from campylobacter jejuni subsp. jejuni… · 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 Q9PIP7
- Elsewhere: RCSB PDB 1VQR · PDBe 1VQR · UniProt Q9PIP7
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