7TXW | pdb_00007txw

Crystal structure of the complex of the malaria sexual stage protein and vaccine target Pfs25 with the Fab fragment of a transmission blocking antibody 1G2

PDB DOI: https://doi.org/10.2210/pdb7TXW/pdb

Classification: IMMUNE SYSTEM
Organism(s): Mus musculus, Plasmodium falciparum 3D7
Expression System: Homo sapiens, Komagataella pastoris
Mutation(s): No

Deposited: 2022-02-10 Released: 2023-04-12
Deposition Author(s): Singh, K., Gittis, A.G., Garboczi, D.N.
Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.17 Å
R-Value Free:
0.230 (Depositor), 0.231 (DCC)
R-Value Work:
0.177 (Depositor), 0.178 (DCC)
R-Value Observed:
0.180 (Depositor)

Starting Model: other
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wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

Structural and immunological differences in Plasmodium falciparum sexual stage transmission-blocking vaccines comprised of Pfs25-EPA nanoparticles.

MacDonald, N.J., Singh, K., Reiter, K., Nguyen, V., Shimp Jr., R., Gittis, A.G., Chen, B., Burkhardt, M., Zhang, B., Wang, Z., Herrera, R., Moler, M., Lee, D.Y., Orr-Gonzalez, S., Herrod, J., Lambert, L.E., Rausch, K.M., Muratova, O., Jones, D.S., Wu, Y., Jin, A.J., Garboczi, D.N., Duffy, P.E., Narum, D.L.

(2023) NPJ Vaccines 8: 56-56

PubMed: 37061547 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.1038/s41541-023-00655-5
Primary Citation Related Structures:
7TXW

PubMed Abstract:
Development of a malaria vaccine that blocks transmission of different parasite stages to humans and mosquitoes is considered critical for elimination efforts. A vaccine using Pfs25, a protein on the surface of zygotes and ookinetes, is under investigation as a transmission-blocking vaccine (TBV) that would interrupt parasite passage from mosquitoes to humans. The most extensively studied Pfs25 TBVs use Pichia pastoris-produced recombinant forms of Pfs25, chemically conjugated to a recombinant carrier protein, ExoProtein A (EPA). The recombinant form of Pfs25 first used in humans was identified as Pfs25H, which contained a total of 14 heterologous amino acid residues located at the amino- and carboxyl-termini including a His6 affinity tag. A second recombinant Pfs25, identified as Pfs25M, was produced to remove the heterologous amino acid residues and conjugated to EPA (Pfs25M-EPA). Here, monomeric Pfs25M was characterized biochemically and biophysically for identity, purity, and integrity including protein structure to assess its comparability with Pfs25H. Although the biological activities of Pfs25H and Pfs25M, whether generated by monomeric forms or conjugated nanoparticles, appeared similar, fine-mapping studies with two transmission-blocking monoclonal antibodies detected structural and immunological differences. In addition, evaluation of antisera generated against conjugated Pfs25H or Pfs25M nanoparticles in nonhuman primates identified polyclonal IgG that recognized these structural differences.

Organizational Affiliation

Laboratory of Malaria Immunology and Vaccinology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, 29 Lincoln Drive, Bethesda, MD, 20892, USA.

Macromolecule Content

Total Structure Weight: 67.6 kDa
Atom Count: 4,231
Modeled Residue Count: 520
Deposited Residue Count: 609
Unique protein chains: 3

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fab fragment of monoclonal antibody 1G2 light chain	A [auth L]	219	Mus musculus	Mutation(s): 0

Find similar proteins by:

| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Fab fragment of monoclonal antibody 1G2 heavy chain	B [auth H]	219	Mus musculus	Mutation(s): 0

Find similar proteins by:

| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Ookinete surface protein P25	C [auth A]	171	Plasmodium falciparum 3D7	Mutation(s): 0 Gene Names: PF3D7_1031000
UniProt
Find proteins for Q7KQL2 (Plasmodium falciparum (isolate 3D7)) Explore Q7KQL2 Go to UniProtKB: Q7KQL2
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q7KQL2
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PEG Query on PEG Download:Ideal Coordinates CCD File SDF format, chain D [auth L] MOL2 format, chain D [auth L] mmCIF format, chain D [auth L]	D [auth L]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain D [auth L] Interactions & Density Focus chain D [auth L]
GOL Query on GOL Download:Ideal Coordinates CCD File SDF format, chain M [auth H] SDF format, chain L [auth H] SDF format, chain K [auth H] SDF format, chain G [auth L] SDF format, chain F [auth L] SDF format, chain E [auth L] MOL2 format, chain M [auth H] MOL2 format, chain L [auth H] MOL2 format, chain K [auth H] MOL2 format, chain G [auth L] MOL2 format, chain F [auth L] MOL2 format, chain E [auth L] mmCIF format, chain M [auth H] mmCIF format, chain L [auth H] mmCIF format, chain K [auth H] mmCIF format, chain G [auth L] mmCIF format, chain F [auth L] mmCIF format, chain E [auth L]	E [auth L] F [auth L] G [auth L] K [auth H] L [auth H] E [auth L], F [auth L], G [auth L], K [auth H], L [auth H], M [auth H]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain E [auth L] Focus chain F [auth L] Focus chain G [auth L] Focus chain K [auth H] Focus chain L [auth H] Focus chain M [auth H] Interactions & Density Focus chain E [auth L] Focus chain F [auth L] Focus chain G [auth L] Focus chain K [auth H] Focus chain L [auth H] Focus chain M [auth H]
EDO Query on EDO Download:Ideal Coordinates CCD File SDF format, chain O [auth H] SDF format, chain N [auth H] SDF format, chain I [auth L] SDF format, chain H [auth L] MOL2 format, chain O [auth H] MOL2 format, chain N [auth H] MOL2 format, chain I [auth L] MOL2 format, chain H [auth L] mmCIF format, chain O [auth H] mmCIF format, chain N [auth H] mmCIF format, chain I [auth L] mmCIF format, chain H [auth L]	H [auth L], I [auth L], N [auth H], O [auth H]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain H [auth L] Focus chain I [auth L] Focus chain N [auth H] Focus chain O [auth H] Interactions & Density Focus chain H [auth L] Focus chain I [auth L] Focus chain N [auth H] Focus chain O [auth H]
EOH Query on EOH Download:Ideal Coordinates CCD File SDF format, chain T [auth H] SDF format, chain S [auth H] SDF format, chain R [auth H] SDF format, chain Q [auth H] SDF format, chain P [auth H] SDF format, chain J [auth L] MOL2 format, chain T [auth H] MOL2 format, chain S [auth H] MOL2 format, chain R [auth H] MOL2 format, chain Q [auth H] MOL2 format, chain P [auth H] MOL2 format, chain J [auth L] mmCIF format, chain T [auth H] mmCIF format, chain S [auth H] mmCIF format, chain R [auth H] mmCIF format, chain Q [auth H] mmCIF format, chain P [auth H] mmCIF format, chain J [auth L]	J [auth L] P [auth H] Q [auth H] R [auth H] S [auth H] J [auth L], P [auth H], Q [auth H], R [auth H], S [auth H], T [auth H]	ETHANOL C₂ H₆ O LFQSCWFLJHTTHZ-UHFFFAOYSA-N		Interactions Focus chain J [auth L] Focus chain P [auth H] Focus chain Q [auth H] Focus chain R [auth H] Focus chain S [auth H] Focus chain T [auth H] Interactions & Density Focus chain J [auth L] Focus chain P [auth H] Focus chain Q [auth H] Focus chain R [auth H] Focus chain S [auth H] Focus chain T [auth H]