5VEB

Crystal structure of a Fab binding to extracellular domain 5 of Cadherin-6


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.34 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.212 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Discovery and Optimization of HKT288, a Cadherin-6-Targeting ADC for the Treatment of Ovarian and Renal Cancers.

Bialucha, C.U.Collins, S.D.Li, X.Saxena, P.Zhang, X.Durr, C.Lafont, B.Prieur, P.Shim, Y.Mosher, R.Lee, D.Ostrom, L.Hu, T.Bilic, S.Rajlic, I.L.Capka, V.Jiang, W.Wagner, J.P.Elliott, G.Veloso, A.Piel, J.C.Flaherty, M.M.Mansfield, K.G.Meseck, E.K.Rubic-Schneider, T.London, A.S.Tschantz, W.R.Kurz, M.Nguyen, D.Bourret, A.Meyer, M.J.Faris, J.E.Janatpour, M.J.Chan, V.W.Yoder, N.C.Catcott, K.C.McShea, M.A.Sun, X.Gao, H.Williams, J.Hofmann, F.Engelman, J.A.Ettenberg, S.A.Sellers, W.R.Lees, E.

(2017) Cancer Discov 7: 1030-1045

  • DOI: 10.1158/2159-8290.CD-16-1414

  • PubMed Abstract: 
  • Despite an improving therapeutic landscape, significant challenges remain in treating the majority of patients with advanced ovarian or renal cancer. We identified the cell-cell adhesion molecule cadherin-6 (CDH6) as a lineage gene having significant ...

    Despite an improving therapeutic landscape, significant challenges remain in treating the majority of patients with advanced ovarian or renal cancer. We identified the cell-cell adhesion molecule cadherin-6 (CDH6) as a lineage gene having significant differential expression in ovarian and kidney cancers. HKT288 is an optimized CDH6-targeting DM4-based antibody-drug conjugate (ADC) developed for the treatment of these diseases. Our study provides mechanistic evidence supporting the importance of linker choice for optimal antitumor activity and highlights CDH6 as an antigen for biotherapeutic development. To more robustly predict patient benefit of targeting CDH6, we incorporate a population-based patient-derived xenograft (PDX) clinical trial (PCT) to capture the heterogeneity of response across an unselected cohort of 30 models-a novel preclinical approach in ADC development. HKT288 induces durable tumor regressions of ovarian and renal cancer models in vivo, including 40% of models on the PCT, and features a preclinical safety profile supportive of progression toward clinical evaluation.Significance: We identify CDH6 as a target for biotherapeutics development and demonstrate how an integrated pharmacology strategy that incorporates mechanistic pharmacodynamics and toxicology studies provides a rich dataset for optimizing the therapeutic format. We highlight how a population-based PDX clinical trial and retrospective biomarker analysis can provide correlates of activity and response to guide initial patient selection for first-in-human trials of HKT288. Cancer Discov; 7(9); 1030-45. ©2017 AACR.This article is highlighted in the In This Issue feature, p. 920.


    Organizational Affiliation

    Novartis Institutes for Biomedical Research, Cambridge, Massachusetts. carl_uli.bialucha@novartis.com.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
anti-CDH6 Fab heavy chain
A, H
225N/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
anti-CDH6 Fab light chain
B, L
215N/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Cadherin-6
X, Y
125Homo sapiensGene Names: CDH6
Find proteins for P55285 (Homo sapiens)
Go to Gene View: CDH6
Go to UniProtKB:  P55285
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SIN
Query on SIN

Download SDF File 
Download CCD File 
A
SUCCINIC ACID
C4 H6 O4
KDYFGRWQOYBRFD-UHFFFAOYSA-N
 Ligand Interaction
A2G
Query on A2G

Download SDF File 
Download CCD File 
X, Y
N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE
C8 H15 N O6
OVRNDRQMDRJTHS-CBQIKETKSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.34 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.212 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 78.829α = 90.00
b = 88.855β = 90.00
c = 186.730γ = 90.00
Software Package:
Software NamePurpose
BUSTERrefinement
PHASERphasing
XSCALEdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-06-07
    Type: Initial release
  • Version 1.1: 2017-09-13
    Type: Database references