MolNFT v1 · #160333 · protein
PFS25 in complex with the human transmission blocking antibody 2586
6PHD · 2586 antibody Fab, heavy chain: “PFS25 in complex with the human transmission blocking antibody 2586”. X-ray diffraction, 7 pockets (best druggability 0.61). MolNFT v1 #160333 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 6PHD
- Type
- protein
- Length
- 600 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 2586 antibody Fab, heavy chain; 2586 antibody Fab, light chain; 25 kda ookinete surface…
- UniProt
- P13829
- Pockets
- 7 · best druggability 0.61
Structure
x-ray diffraction · 3 distinct chains · 7% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H | 2586 antibody Fab, heavy chain | protein | 224 | 8% helix, 53% strand | — |
| L | 2586 antibody Fab, light chain | protein | 209 | 8% helix, 49% strand | — |
| C | 25 kda ookinete surface antigen | protein | 167 | 4% helix, 46% strand | P13829 |
Pockets
7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 377 | 0.61 | 0.77 | 46 | empty |
| 2 | 553 | 0.61 | 0.74 | 56 | empty |
| 3 | 128 | 0.40 | 0.74 | 25 | empty |
| 4 | 106 | 0.37 | 0.74 | 16 | empty |
| 5 | 93 | 0.35 | 0.74 | 18 | empty |
Interfaces
3 interfaces between chains.
- H–L · 1693 Ų buried · 12 hydrogen bonds · protein-protein
- H–C · 489 Ų buried · 11 hydrogen bonds · protein-protein
- L–C · 459 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 15 disulfide (disulfide).
Compared structures
- 6PHD · Pfs25 in complex with the human transmission blocking antibody 2586 · the same entry in another collection · chain H against H, TM-score 1.00
- P13829 · AlphaFold monomer V2.0 prediction for 25 kda ookinete surface antigen (P13829) · a predicted model of the same protein · chain C against A, TM-score 0.98
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 P13829
- Elsewhere: RCSB PDB 6PHD · PDBe 6PHD · UniProt P13829
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