6F6O | pdb_00006f6o

Structure of Adenovirus 3 fiber head V239D mutant


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.49 Å
  • R-Value Free: 
    0.170 (Depositor), 0.173 (DCC) 
  • R-Value Work: 
    0.151 (Depositor), 0.152 (DCC) 
  • R-Value Observed: 
    0.152 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.3 of the entry. See complete history

Literature

Preclinical safety and efficacy studies with an affinity-enhanced epithelial junction opener and PEGylated liposomal doxorubicin.

Richter, M.Yumul, R.Wang, H.Saydaminova, K.Ho, M.May, D.Baldessari, A.Gough, M.Drescher, C.Urban, N.Roffler, S.Zubieta, C.Carter, D.Fender, P.Lieber, A.

(2015) Mol Ther Methods Clin Dev 2: 15005-15005

  • DOI: https://doi.org/10.1038/mtm.2015.5
  • Primary Citation Related Structures: 
    4WYJ, 6F6O

  • PubMed Abstract: 

    A central treatment resistance mechanism in solid tumors is the maintenance of epithelial junctions between malignant cells that prevent drug penetration into the tumor. We have developed a small recombinant protein (JO-1) that triggers the transient opening of intercellular junctions and thus increases the efficacy of monoclonal antibodies and chemotherapeutic drugs without causing toxicity in mouse tumor models. Here, we provide data toward the clinical translation of an affinity-enhanced version of JO-1, which we call JO-4, in combination with PEGylated liposomal doxorubicin (PLD)/Doxil for ovarian cancer therapy. We have presented X-ray crystallography data suggesting a structural basis for the higher affinity of JO-4 to DSG2. We also confirmed JO-4 efficacy in a xenograft model with primary ovarian cancer cells showing that JO-4 can salvage Doxil therapy when given at a dose that was threefold lower than the therapeutic dose. Furthermore, we tested the safety of intravenous JO-4 alone and in combination with Doxil in Macaca fascicularis, an adequate animal model for predicting toxicity in humans. Our studies did not show critical JO-4-related toxicity or an increase of Doxil-related side effects. Our efficacy and safety data will help to support an Investigational new drug-filing for a JO-4/Doxil combination treatment.


  • Organizational Affiliation
    • Division of Medical Genetics, University of Washington , Seattle, Washington, USA.

Macromolecule Content 

  • Total Structure Weight: 21.78 kDa 
  • Atom Count: 1,688 
  • Modeled Residue Count: 190 
  • Deposited Residue Count: 196 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Fiber protein196Human adenovirus B3Mutation(s): 1 
Gene Names: L5
UniProt
Find proteins for P04501 (Human adenovirus B serotype 3)
Explore P04501 
Go to UniProtKB:  P04501
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP04501
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.49 Å
  • R-Value Free:  0.170 (Depositor), 0.173 (DCC) 
  • R-Value Work:  0.151 (Depositor), 0.152 (DCC) 
  • R-Value Observed: 0.152 (Depositor) 
Space Group: P 21 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 81.867α = 90
b = 81.867β = 90
c = 81.867γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
France--

Revision History  (Full details and data files)

  • Version 1.0: 2018-12-19
    Type: Initial release
  • Version 1.1: 2019-07-03
    Changes: Data collection, Database references
  • Version 1.2: 2019-08-14
    Changes: Data collection
  • Version 1.3: 2024-01-17
    Changes: Data collection, Database references, Refinement description