Research workbench
Crystal structure of PFS25 in complex with the transmission blocking antibody 1190
Analyse Crystal structure of PFS25 in complex with the transmission blocking antibody… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6AZZ
- Type
- protein
- Length
- 1,179 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 1190 antibody, heavy chain; 1190 antibody, light chain; PFS25
- Pockets
- 13 · best druggability 0.71
Structure
x-ray diffraction · 5 distinct chains · 7% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| F | 1190 antibody, heavy chain | protein | 220 | 8% helix, 51% strand | — |
| E, B | 1190 antibody, light chain | protein | 212 | 8% helix, 50% strand | — |
| C | 1190 antibody, heavy chain | protein | 217 | 8% helix, 53% strand | — |
| A | PFS25 | protein | 151 | 4% helix, 47% strand | — |
| D | PFS25 | protein | 167 | 4% helix, 48% strand | — |
Ligands and binding sites
- ACT · Acetate ion · additive · 6 copies · chains F, E, C, D
- GOL · Glycerol · additive · 5 copies · chains F, E, C, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 924 | 0.71 | 0.75 | 76 | ACT, GOL |
| 2 | 305 | 0.57 | 0.76 | 41 | empty |
| 3 | 285 | 0.54 | 0.75 | 39 | empty |
| 4 | 328 | 0.52 | 0.74 | 46 | GOL |
| 5 | 245 | 0.49 | 0.74 | 38 | GOL |
Interfaces
9 interfaces between chains.
- F–E · 1790 Ų buried · 9 hydrogen bonds · protein-protein
- C–B · 1667 Ų buried · 10 hydrogen bonds · protein-protein
- C–A · 671 Ų buried · 10 hydrogen bonds · protein-protein
- F–D · 670 Ų buried · 9 hydrogen bonds · protein-protein
- B–A · 581 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 29 disulfide (disulfide).
Compared structures
- 6AZZ · Crystal structure of Pfs25 in complex with the transmission blocking antibody 1190 · the same entry in another collection · chain F against F, 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
- Elsewhere: RCSB PDB 6AZZ · PDBe 6AZZ
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