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 9Z56 | pdb_00009z56

Crystal structure of VACV-A33 in complex with antibody A35-Ab1gr1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.41 Å
  • R-Value Free: 
    0.265 (Depositor), 0.265 (DCC) 
  • R-Value Work: 
    0.219 (Depositor), 0.219 (DCC) 
  • R-Value Observed: 
    0.223 (Depositor) 

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

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This is version 1.0 of the entry. See complete history. 

Literature

Antibodies to distinct epitopes on MPXV enveloped virion provide additive and complete protection.

Zhang, D., Fantin, R.F., Zhu, X., Feng, Z., Park, S.C., Laghlali, G., Clark, J.J., Nobrega, G.M., Kottkamp, A.C., Samanovic, M.I., Mulligan, M.J., Lim, J.K., Schotsaert, M., Yuan, M., Coelho, C.H., Wilson, I.A.

(2026) Sci Immunol 11: eaee7011-eaee7011

  • DOI: https://doi.org/10.1126/sciimmunol.aee7011
  • Primary Citation Related Structures: 
    9Z4P, 9Z56, 9Z57, 9Z58, 9Z59, 9Z5A, 9Z5B, 9Z5C, 9Z5D, 9Z5E, 9Z5F, 9Z5G, 9Z5H

  • PubMed Abstract: 

    The continuing evolution of monkeypox virus (MPXV) clades capable of sustained human-to-human transmission poses an escalating global health risk, yet no effective therapy exists for poxvirus infection. Here, we investigate a panel of human monoclonal antibodies (mAbs), derived from an antibody library, which targets A35 and B6 antigens located on the extracellular enveloped virion (EV). Four high-affinity mAbs target the central groove of the A35 dimer, whereas one targets a previously unidentified epitope on the A35 protruding loop. Three other mAbs recognize distinct, previously unmapped epitopes on the multidomain B6 antigen. Those epitopes are conserved across most orthopoxviruses. A combination of an anti-A35 and an anti-B6 antibody provides additive and complete protection from both morbidity and mortality in a lethal VACV mouse model, challenging the previous assumption that targeting both the EV and mature virion (MV) forms is required for full protection. These studies uncover critical information for next-generation therapeutics and vaccines against emerging MPXV as well as other Orthopoxvirus threats.


  • Organizational Affiliation: 
    • Department of Integrative Structural and Computational Biology, Scripps Research Institute, La Jolla, CA, USA.

Macromolecule Content 

  • Total Structure Weight: 71.43 kDa 
  • Atom Count: 4,636 
  • Modeled Residue Count: 600 
  • Deposited Residue Count: 654 
  • Unique protein chains: 3

Macromolecules

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Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
A35-Ab1gr1 antibody light chainA [auth L]216Homo sapiensMutation(s): 0 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
A35-Ab1gr1 antibody heavy chainB [auth H]230Homo sapiensMutation(s): 0 
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
Protein OPG161
C, D
104Orthopoxvirus vacciniaMutation(s): 0 
Gene Names: OPG161, A33R
UniProt
Find proteins for P68616 (Vaccinia virus (strain Copenhagen))
Explore P68616 
Go to UniProtKB:  P68616
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP68616
Glycosylation
Glycosylation Sites: 1
Sequence Annotations
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Reference Sequence

Oligosaccharides

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Entity ID: 4
MoleculeChains Length2D Diagram GlycosylationD Interactions
beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-alpha-D-galactopyranoseE [auth A]2O-Glycosylation

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.41 Å
  • R-Value Free:  0.265 (Depositor), 0.265 (DCC) 
  • R-Value Work:  0.219 (Depositor), 0.219 (DCC) 
  • R-Value Observed: 0.223 (Depositor) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 53.686α = 90
b = 56.844β = 90
c = 208.313γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data scaling
HKL-2000data reduction
PHENIXphasing
PDB_EXTRACTdata extraction

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2026-11-11
    Type: Initial release