Research workbench
PFS48/45 bound to scfv fragment of monoclonal antibody 32F3
Analyse PFS48/45 bound to scfv fragment of monoclonal antibody 32F3 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7ZWF
- Type
- protein
- Length
- 497 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Gametocyte surface protein P45/48; 32F3SCFV
- UniProt
- Q8I6T1
- Ligands
- NAG, FUC
- Pockets
- 7 · best druggability 0.60
Structure
x-ray diffraction · 2 distinct chains · 4% helix, 45% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Gametocyte surface protein P45/48 | protein | 258 | 3% helix, 45% strand | Q8I6T1 |
| B | 32F3SCFV | protein | 239 | 5% helix, 45% strand | — |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains A
- FUC · alpha-L-fucopyranose · sugar · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 124 | 0.60 | 0.86 | 27 | empty |
| 2 | 130 | 0.60 | 0.85 | 22 | empty |
| 3 | 55 | 0.56 | 0.89 | 17 | empty |
| 4 | 85 | 0.51 | 0.83 | 23 | empty |
| 5 | 72 | 0.32 | 0.75 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 1178 Ų buried · 17 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 7 disulfide, 1 glycan (disulfide, N-glycosylation).
Compared structures
- 7ZWF · Pfs48/45 bound to scFv fragment of monoclonal antibody 32F3 · the same entry in another collection · chain A against A, TM-score 1.00
- Q8I6T1 · AlphaFold monomer V2.0 prediction for gametocyte surface protein P45/48 (Q8I6T1) · a predicted model of the same protein · chain A against A, TM-score 0.88
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 Q8I6T1
- Elsewhere: RCSB PDB 7ZWF · PDBe 7ZWF · UniProt Q8I6T1
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