1Z3G | pdb_00001z3g

Crystal structure of complex between Pvs25 and Fab fragment of malaria transmission blocking antibody 2A8

• PDB DOI: https://doi.org/10.2210/pdb1Z3G/pdb

• Classification: IMMUNE SYSTEM/CELL ADHESION
• Organism(s): Mus musculus, Plasmodium vivax Sal-1
• Expression System: Mus musculus, Saccharomyces cerevisiae
• Mutation(s): No 


• Deposited: 2005-03-12 Released: 2005-12-06 
• Deposition Author(s): Saxena, A.K., Singh, K., Su, H.P., Klein, M.M., Stowers, A.W., Saul, A.J., Long, C.A., Garboczi, D.N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.30 Å
• R-Value Free: 
  0.327 (Depositor), 0.310 (DCC) 
• R-Value Work: 
  0.272 (Depositor), 0.260 (DCC) 
• R-Value Observed: 
  0.275 (Depositor) 

Starting Models: experimental

Literature

The essential mosquito-stage P25 and P28 proteins from Plasmodium form tile-like triangular prisms

Saxena, A.K., Singh, K., Su, H.P., Klein, M.M., Stowers, A.W., Saul, A.J., Long, C.A., Garboczi, D.N.

(2006) Nat Struct Mol Biol 13: 90-91

• PubMed: 16327807 
• DOI: https://doi.org/10.1038/nsmb1024
• Primary Citation of Related Structures:  
  1Z1Y, 1Z27, 1Z3G


• PubMed Abstract: 
  

  P25 and P28 proteins are essential for Plasmodium parasites to infect mosquitoes and are leading candidates for a transmission-blocking malaria vaccine. The Plasmodium vivax P25 is a triangular prism that could tile the parasite surface. The residues forming the triangle are conserved in P25 and P28 from all Plasmodium species. A cocrystal structure shows that a transmission-blocking antibody uses only its heavy chain to bind Pvs25 at a vertex of the triangle.

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Organizational Affiliation: 
• Structural Biology Section, Laboratory of Immunogenetics, National Institute of Allergy and Infectious Diseases (NIAID), US National Institutes of Health (NIH), Twinbrook 2, 12441 Parklawn Drive, Rockville, Maryland 20852, USA. [e-mail]

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 134.21 kDa 
• Atom Count: 9,120 
• Modeled Residue Count: 1,200 
• Deposited Residue Count: 1,230 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
2A8 Fab Light Chain	A [auth L], C [auth M]	213	Mus musculus	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
2A8 Fab Heavy Chain	B [auth H], D [auth I]	216	Mus musculus	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
ookinete surface protein Pvs25	E [auth A], F [auth B]	186	Plasmodium vivax Sal-1	Mutation(s): 0
UniProt
Find proteins for O96555 (Plasmodium vivax) Explore O96555  Go to UniProtKB:  O96555

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.30 Å
• R-Value Free:  0.327 (Depositor), 0.310 (DCC) 
• R-Value Work:  0.272 (Depositor), 0.260 (DCC) 
• R-Value Observed: 0.275 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 86.262	α = 90
b = 61.649	β = 101.68
c = 142.65	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-12-06 
Deposition Author(s): Saxena, A.K., Singh, K., Su, H.P., Klein, M.M., Stowers, A.W., Saul, A.J., Long, C.A., Garboczi, D.N.

Revision History  

• Version 1.0: 2005-12-06
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.3: 2017-10-11
  Changes: Refinement description
• Version 1.4: 2024-04-03
  Changes: Data collection, Database references, Refinement description
• Version 1.5: 2024-10-30
  Changes: Structure summary