6D01

Crystal structure of 1210 Fab in complex with circumsporozoite protein NANP5


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.227 
  • R-Value Work: 0.204 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Antihomotypic affinity maturation improves human B cell responses against a repetitive epitope.

Imkeller, K.Scally, S.W.Bosch, A.Marti, G.P.Costa, G.Triller, G.Murugan, R.Renna, V.Jumaa, H.Kremsner, P.G.Sim, B.K.L.Hoffman, S.L.Mordmuller, B.Levashina, E.A.Julien, J.P.Wardemann, H.

(2018) Science 360: 1358-1362

  • DOI: 10.1126/science.aar5304
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Affinity maturation selects B cells expressing somatically mutated antibody variants with improved antigen-binding properties to protect from invading pathogens. We determined the molecular mechanism underlying the clonal selection and affinity matur ...

    Affinity maturation selects B cells expressing somatically mutated antibody variants with improved antigen-binding properties to protect from invading pathogens. We determined the molecular mechanism underlying the clonal selection and affinity maturation of human B cells expressing protective antibodies against the circumsporozoite protein of the malaria parasite Plasmodium falciparum (PfCSP). We show in molecular detail that the repetitive nature of PfCSP facilitates direct homotypic interactions between two PfCSP repeat-bound monoclonal antibodies, thereby improving antigen affinity and B cell activation. These data provide a mechanistic explanation for the strong selection of somatic mutations that mediate homotypic antibody interactions after repeated parasite exposure in humans. Our findings demonstrate a different mode of antigen-mediated affinity maturation to improve antibody responses to PfCSP and presumably other repetitive antigens.


    Organizational Affiliation

    Institute of Immunology, University Medical Center Ulm, Ulm, Germany.,Departments of Biochemistry and Immunology, University of Toronto, Toronto, ON, Canada.,Faculty of Biosciences, Heidelberg University, Heidelberg, Germany.,B Cell Immunology, German Cancer Research Institute, Heidelberg, Germany. h.wardemann@dkfz.de jean-philippe.julien@sickkids.ca.,Program in Molecular Medicine, The Hospital for Sick Children Research Institute, Toronto, ON, Canada.,Sanaria, Rockville, MD, USA.,B Cell Immunology, German Cancer Research Institute, Heidelberg, Germany.,Program in Molecular Medicine, The Hospital for Sick Children Research Institute, Toronto, ON, Canada. h.wardemann@dkfz.de jean-philippe.julien@sickkids.ca.,Institute of Tropical Medicine and German Center for Infection Research, Partner Site Tübingen, University of Tübingen, Tübingen, Germany.,Vector Biology Unit, Max Planck Institute for Infection Biology, Berlin, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
1210 Antibody, heavy chain
A, C, E, G
226N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
1210 Antibody, Light chain
B, D, F, H
213N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
NANP5
I, J
20Plasmodium falciparumMutation(s): 0 
Find proteins for P02893 (Plasmodium falciparum)
Go to UniProtKB:  P02893
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EDO
Query on EDO

Download SDF File 
Download CCD File 
A, B, C, D, E, F, G, H, I, J
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
PEG
Query on PEG

Download SDF File 
Download CCD File 
A, B, C, D, E, F
DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.227 
  • R-Value Work: 0.204 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 205.963α = 90.00
b = 150.856β = 94.81
c = 134.651γ = 90.00
Software Package:
Software NamePurpose
PHENIXphasing
PHENIXrefinement
XDSdata reduction
XDSdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-06-13
    Type: Initial release
  • Version 1.1: 2018-06-20
    Type: Data collection, Database references
  • Version 1.2: 2018-07-04
    Type: Data collection, Database references