Research workbench
Crystal structure of complex between PVS25 and Fab fragment of malaria transmission blocking antibody 2A8
Analyse Crystal structure of complex between PVS25 and Fab fragment of malaria… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1Z3G
- Type
- protein
- Length
- 1,200 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 2A8 Fab light chain; 2A8 Fab heavy chain; Ookinete surface protein PVS25
- UniProt
- O96555
- Pockets
- 16 · best druggability 0.70
Structure
x-ray diffraction · 3 distinct chains · 6% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L, M | 2A8 Fab light chain | protein | 213 | 5% helix, 52% strand | — |
| H, I | 2A8 Fab heavy chain | protein | 214 | 6% helix, 46% strand | — |
| A, B | Ookinete surface protein PVS25 | protein | 173 | 5% helix, 32% strand | O96555 |
Pockets
16 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 592 | 0.70 | 0.79 | 63 | empty |
| 2 | 440 | 0.64 | 0.78 | 49 | empty |
| 3 | 346 | 0.64 | 0.79 | 45 | empty |
| 4 | 619 | 0.63 | 0.74 | 66 | empty |
| 5 | 511 | 0.60 | 0.74 | 56 | empty |
Interfaces
9 interfaces between chains.
- L–H · 1786 Ų buried · 16 hydrogen bonds · protein-protein
- M–I · 1685 Ų buried · 12 hydrogen bonds · protein-protein
- I–B · 675 Ų buried · 11 hydrogen bonds · protein-protein
- H–A · 671 Ų buried · 12 hydrogen bonds · protein-protein
- H–I · 433 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 29 disulfide (disulfide).
Compared structures
- 1Z3G · Crystal structure of complex between Pvs25 and Fab fragment of malaria transmission… · the same entry in another collection · chain L against L, 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 O96555
- Elsewhere: RCSB PDB 1Z3G · PDBe 1Z3G · UniProt O96555
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