Research workbench
PFS48/45 bound to monoclonal antibodies 10D8 and 85RF45.1
Analyse PFS48/45 bound to monoclonal antibodies 10D8 and 85RF45.1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7ZXF
- Type
- protein
- Length
- 1,190 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Gametocyte surface protein P45/48; 85RF45.1 heavy chain; 85RF45.1 light chain; 10D8 heavy…
- UniProt
- Q8I6T1
- Ligands
- NAG, BMA, MAN
- Pockets
- 16 · best druggability 0.72
Structure
x-ray diffraction · 5 distinct chains · 4% helix, 47% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Gametocyte surface protein P45/48 | protein | 337 | 2% helix, 46% strand | Q8I6T1 |
| B | 85RF45.1 heavy chain | protein | 206 | 4% helix, 48% strand | — |
| C | 85RF45.1 light chain | protein | 216 | 8% helix, 49% strand | — |
| D | 10D8 heavy chain | protein | 214 | 3% helix, 49% strand | — |
| E | 10D8 light chain | protein | 217 | 5% helix, 45% strand | — |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 4 copies · chains A, E, D
- BMA · beta-D-mannopyranose · sugar · 2 copies · chains E
- MAN · alpha-D-mannopyranose · sugar · 2 copies
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
16 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 352 | 0.72 | 0.84 | 37 | empty |
| 2 | 557 | 0.62 | 0.75 | 59 | empty |
| 3 | 50 | 0.58 | 0.91 | 20 | empty |
| 4 | 184 | 0.56 | 0.80 | 33 | empty |
| 5 | 298 | 0.52 | 0.74 | 37 | empty |
Interfaces
6 interfaces between chains.
- D–E · 1929 Ų buried · 14 hydrogen bonds · protein-protein
- B–C · 1838 Ų buried · 15 hydrogen bonds · protein-protein
- A–B · 615 Ų buried · 10 hydrogen bonds · protein-protein
- A–D · 534 Ų buried · 19 hydrogen bonds · protein-protein
- A–C · 354 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 15 disulfide, 2 glycan (disulfide, N-glycosylation).
Compared structures
- 7ZXF · Pfs48/45 bound to monoclonal antibodies 10D8 and 85RF45.1 · 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 0.70
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 7ZXF · PDBe 7ZXF · UniProt Q8I6T1
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