Research workbench
Structure of francisella pdpa-vgrg complex, half-lidded
Analyse Structure of francisella pdpa-vgrg complex, half-lidded in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6U9G
- Type
- protein
- Length
- 2,355 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pdpa; Vgrg
- UniProt
- A0Q7H0, A0Q7H3
- Pockets
- 20 · best druggability 0.80
Structure
electron microscopy · 2 distinct chains · 12% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E | Pdpa | protein | 652 | 15% helix, 27% strand | A0Q7H0 |
| B, D, F | Vgrg | protein | 133 | 0% helix, 48% strand | A0Q7H3 |
Pockets
20 pockets found on a 1 Å grid, 17 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 177 | 0.80 | 0.95 | 36 | empty |
| 2 | 136 | 0.79 | 0.96 | 24 | empty |
| 3 | 147 | 0.79 | 0.94 | 24 | empty |
| 4 | 873 | 0.79 | 0.82 | 82 | empty |
| 5 | 109 | 0.77 | 0.96 | 16 | empty |
Interfaces
12 interfaces between chains.
- A–E · 3813 Ų buried · 58 hydrogen bonds · protein-protein
- A–C · 3796 Ų buried · 55 hydrogen bonds · protein-protein
- C–E · 3786 Ų buried · 55 hydrogen bonds · protein-protein
- B–F · 3165 Ų buried · 43 hydrogen bonds · protein-protein
- D–F · 3150 Ų buried · 42 hydrogen bonds · protein-protein
Compared structures
- 6U9G · Structure of Francisella PdpA-VgrG Complex, half-lidded · 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 A0Q7H0
- Every structure of UniProt A0Q7H3
- Elsewhere: RCSB PDB 6U9G · PDBe 6U9G · UniProt A0Q7H0 · UniProt A0Q7H3
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