DOE PAGES title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: Topological control of cytokine receptor signaling induces differential effects in hematopoiesis

Abstract

Although tunable signaling by G protein–coupled receptors can be exploited through medicinal chemistry, a comparable pharmacological approach has been lacking for the modulation of signaling through dimeric receptors, such as those for cytokines. We present a strategy to modulate cytokine receptor signaling output by use of a series of designed C2-symmetric cytokine mimetics, based on the designed ankyrin repeat protein (DARPin) scaffold, that can systematically control erythropoietin receptor (EpoR) dimerization orientation and distance between monomers. We sampled a range of EpoR geometries by varying intermonomer angle and distance, corroborated by several ligand-EpoR complex crystal structures. Across the range, we observed full, partial, and biased agonism as well as stage-selective effects on hematopoiesis. Lastly, this surrogate ligand strategy opens access to pharmacological modulation of therapeutically important cytokine and growth factor receptor systems.

Authors:
ORCiD logo [1]; ORCiD logo [2]; ORCiD logo [3]; ORCiD logo [4]; ORCiD logo [2]; ORCiD logo [5]; ORCiD logo [6]; ORCiD logo [1]; ORCiD logo [7]; ORCiD logo [8]; ORCiD logo [3]; ORCiD logo [9]; ORCiD logo [10]
  1. Stanford Univ., CA (United States). School of Medicine
  2. Univ. of Washington, Seattle, WA (United States). Dept. of Biochemistry, and Inst. for Protein Design
  3. Boston Children’s Hospital and Harvard Medical School, Boston, MA (United States). Division of Hematology/Oncology, The Manton Center for Orphan Disease Research; Harvard Medical School, Boston, MA (United States). Dana-Farber Cancer Inst., Dept. of Pediatric Oncology; Broad Inst. of MIT and Harvard, Cambridge, MA (United States)
  4. Stanford Univ., CA (United States). Howard Hughes Medical Inst.
  5. Nankai Univ., Tianjin (China). State Key Lab. of Medicinal Chemical Biology and College of Pharmacy
  6. Univ. of Osnabrück, Osnabrück (Germany). Division of Biophysics, Dept. of Biology
  7. Stanford Univ., CA (United States). School of Medicine, and Howard Hughes Medical Inst.
  8. Univ. of Osnabrück, Osnabrück (Germany). Division of Biophysics, Dept. of Biology, and Center for Cellular Nanoanalytics
  9. Univ. of Washington, Seattle, WA (United States). Dept. of Biochemistry, and Inst. for Protein Design, and Howard Hughes Medical Inst.
  10. Stanford Univ., CA (United States). School of Medicine, Howard Hughes Medical Inst., and Dept. of Structural Biology
Publication Date:
Research Org.:
SLAC National Accelerator Lab., Menlo Park, CA (United States)
Sponsoring Org.:
USDOE; National Institutes of Health (NIH); German Research Foundation (DFG)
OSTI Identifier:
1532487
Grant/Contract Number:  
AC02-76SF00515; AC02-06CH11357; AC02-05CH11231; S10OD021832; R01-AI51321; T32HL066987; R01 DK103794; R33 HL120791; 1S10OD012289-01A1
Resource Type:
Accepted Manuscript
Journal Name:
Science
Additional Journal Information:
Journal Volume: 364; Journal Issue: 6442; Journal ID: ISSN 0036-8075
Publisher:
AAAS
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES

Citation Formats

Mohan, Kritika, Ueda, George, Kim, Ah Ram, Jude, Kevin M., Fallas, Jorge A., Guo, Yu, Hafer, Maximillian, Miao, Yi, Saxton, Robert A., Piehler, Jacob, Sankaran, Vijay G., Baker, David, and Garcia, K. Christopher. Topological control of cytokine receptor signaling induces differential effects in hematopoiesis. United States: N. p., 2019. Web. doi:10.1126/science.aav7532.
Mohan, Kritika, Ueda, George, Kim, Ah Ram, Jude, Kevin M., Fallas, Jorge A., Guo, Yu, Hafer, Maximillian, Miao, Yi, Saxton, Robert A., Piehler, Jacob, Sankaran, Vijay G., Baker, David, & Garcia, K. Christopher. Topological control of cytokine receptor signaling induces differential effects in hematopoiesis. United States. https://doi.org/10.1126/science.aav7532
Mohan, Kritika, Ueda, George, Kim, Ah Ram, Jude, Kevin M., Fallas, Jorge A., Guo, Yu, Hafer, Maximillian, Miao, Yi, Saxton, Robert A., Piehler, Jacob, Sankaran, Vijay G., Baker, David, and Garcia, K. Christopher. Thu . "Topological control of cytokine receptor signaling induces differential effects in hematopoiesis". United States. https://doi.org/10.1126/science.aav7532. https://www.osti.gov/servlets/purl/1532487.
@article{osti_1532487,
title = {Topological control of cytokine receptor signaling induces differential effects in hematopoiesis},
author = {Mohan, Kritika and Ueda, George and Kim, Ah Ram and Jude, Kevin M. and Fallas, Jorge A. and Guo, Yu and Hafer, Maximillian and Miao, Yi and Saxton, Robert A. and Piehler, Jacob and Sankaran, Vijay G. and Baker, David and Garcia, K. Christopher},
abstractNote = {Although tunable signaling by G protein–coupled receptors can be exploited through medicinal chemistry, a comparable pharmacological approach has been lacking for the modulation of signaling through dimeric receptors, such as those for cytokines. We present a strategy to modulate cytokine receptor signaling output by use of a series of designed C2-symmetric cytokine mimetics, based on the designed ankyrin repeat protein (DARPin) scaffold, that can systematically control erythropoietin receptor (EpoR) dimerization orientation and distance between monomers. We sampled a range of EpoR geometries by varying intermonomer angle and distance, corroborated by several ligand-EpoR complex crystal structures. Across the range, we observed full, partial, and biased agonism as well as stage-selective effects on hematopoiesis. Lastly, this surrogate ligand strategy opens access to pharmacological modulation of therapeutically important cytokine and growth factor receptor systems.},
doi = {10.1126/science.aav7532},
journal = {Science},
number = 6442,
volume = 364,
place = {United States},
year = {2019},
month = {5}
}

Journal Article:
Free Publicly Available Full Text
Publisher's Version of Record

Citation Metrics:
Cited by: 47 works
Citation information provided by
Web of Science

Save / Share:

Works referenced in this record:

Orientation-specific signalling by thrombopoietin receptor dimers: Orientation-specific TpoR signalling
journal, September 2011

  • Staerk, Judith; Defour, Jean-Philippe; Pecquet, Christian
  • The EMBO Journal, Vol. 30, Issue 21
  • DOI: 10.1038/emboj.2011.315

Targeted Application of Human Genetic Variation Can Improve Red Blood Cell Production from Stem Cells
journal, January 2016


Selective targeting of engineered T cells using orthogonal IL-2 cytokine-receptor complexes
journal, March 2018

  • Sockolosky, Jonathan T.; Trotta, Eleonora; Parisi, Giulia
  • Science, Vol. 359, Issue 6379
  • DOI: 10.1126/science.aar3246

Will any dimer do?
journal, November 1998

  • Ballinger, Marcus D.; Wells, James A.
  • Nature Structural Biology, Vol. 5, Issue 11
  • DOI: 10.1038/2911

Overview of the CCP 4 suite and current developments
journal, March 2011

  • Winn, Martyn D.; Ballard, Charles C.; Cowtan, Kevin D.
  • Acta Crystallographica Section D Biological Crystallography, Vol. 67, Issue 4
  • DOI: 10.1107/S0907444910045749

Crystal Structure of the Marburg Virus VP35 Oligomerization Domain
journal, November 2016

  • Bruhn, Jessica F.; Kirchdoerfer, Robert N.; Urata, Sarah M.
  • Journal of Virology, Vol. 91, Issue 2
  • DOI: 10.1128/JVI.01085-16

Collaboration gets the most out of software
journal, September 2013


Towards automated crystallographic structure refinement with phenix.refine
journal, March 2012

  • Afonine, Pavel V.; Grosse-Kunstleve, Ralf W.; Echols, Nathaniel
  • Acta Crystallographica Section D Biological Crystallography, Vol. 68, Issue 4
  • DOI: 10.1107/S0907444912001308

Interleukins (from IL-1 to IL-38), interferons, transforming growth factor β, and TNF-α: Receptors, functions, and roles in diseases
journal, October 2016

  • Akdis, Mübeccel; Aab, Alar; Altunbulakli, Can
  • Journal of Allergy and Clinical Immunology, Vol. 138, Issue 4
  • DOI: 10.1016/j.jaci.2016.06.033

Designing Repeat Proteins: Well-expressed, Soluble and Stable Proteins from Combinatorial Libraries of Consensus Ankyrin Repeat Proteins
journal, September 2003


XDS
journal, January 2010

  • Kabsch, Wolfgang
  • Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 2
  • DOI: 10.1107/S0907444909047337

Interpreting mixed signals: the cell's cytokine conundrum
journal, October 2011

  • Delgoffe, Greg M.; Murray, Peter J.; Vignali, Dario AA
  • Current Opinion in Immunology, Vol. 23, Issue 5
  • DOI: 10.1016/j.coi.2011.07.013

Functional Mimicry of a Protein Hormone by a Peptide Agonist: The EPO Receptor Complex at 2.8 A
journal, July 1996


A Reducing and Oxidizing System Minimizes Photobleaching and Blinking of Fluorescent Dyes
journal, July 2008

  • Vogelsang, Jan; Kasper, Robert; Steinhauer, Christian
  • Angewandte Chemie International Edition, Vol. 47, Issue 29, p. 5465-5469
  • DOI: 10.1002/anie.200801518

Receptor dimerization dynamics as a regulatory valve for plasticity of type I interferon signaling
journal, May 2015

  • Wilmes, Stephan; Beutel, Oliver; Li, Zhi
  • The Journal of Cell Biology, Vol. 209, Issue 4
  • DOI: 10.1083/jcb.201412049

Effective screening method of agonistic diabodies based on autocrine growth
journal, August 2009

  • Nakano, Kiyotaka; Kojima, Tetsuo; Kasutani, Keiko
  • Journal of Immunological Methods, Vol. 347, Issue 1-2
  • DOI: 10.1016/j.jim.2009.05.012

Cell Signaling by Receptor Tyrosine Kinases
journal, June 2010


Designed Ankyrin Repeat Proteins (DARPins): Binding Proteins for Research, Diagnostics, and Therapy
journal, January 2015


Cytokine and Cytokine Receptor Pleiotropy and Redundancy
journal, June 2002

  • Ozaki, Katsutoshi; Leonard, Warren J.
  • Journal of Biological Chemistry, Vol. 277, Issue 33
  • DOI: 10.1074/jbc.R200003200

Decoupling the Functional Pleiotropy of Stem Cell Factor by Tuning c-Kit Signaling
journal, March 2017


Hematopoietic cytokines
journal, January 2008


Recent developments in biased agonism
journal, April 2014


PHENIX: a comprehensive Python-based system for macromolecular structure solution
journal, January 2010

  • Adams, Paul D.; Afonine, Pavel V.; Bunkóczi, Gábor
  • Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 2, p. 213-221
  • DOI: 10.1107/S0907444909052925

An introduction to data reduction: space-group determination, scaling and intensity statistics
journal, March 2011

  • Evans, Philip R.
  • Acta Crystallographica Section D Biological Crystallography, Vol. 67, Issue 4
  • DOI: 10.1107/S090744491003982X

Use of Non-crystallographic Symmetry in Protein Structure Refinement
journal, July 1996

  • Kleywegt, G. J.
  • Acta Crystallographica Section D Biological Crystallography, Vol. 52, Issue 4
  • DOI: 10.1107/S0907444995016477

Ankyrin Repeat:  A Unique Motif Mediating Protein−Protein Interactions
journal, December 2006

  • Li, Junan; Mahajan, Anjali; Tsai, Ming-Daw
  • Biochemistry, Vol. 45, Issue 51
  • DOI: 10.1021/bi062188q

The Prolactin Receptor Rescues EpoR−/− Erythroid Progenitors and Replaces EpoR in a Synergistic Interaction With c-kit
journal, September 1998


Apoptotic mechanisms in the control of erythropoiesis
journal, June 2004


Rapid Transfer of Transmembrane Proteins for Single Molecule Dimerization Assays in Polymer-Supported Membranes
journal, September 2014

  • Roder, Friedrich; Wilmes, Stephan; Richter, Christian P.
  • ACS Chemical Biology, Vol. 9, Issue 11
  • DOI: 10.1021/cb5005806

Mechanistic Diversity of Cytokine Receptor Signaling Across Cell Membranes
journal, April 2004


Structural Linkage between Ligand Discrimination and Receptor Activation by Type I Interferons
journal, August 2011


Interleukin-2 Activity Can Be Fine Tuned with Engineered Receptor Signaling Clamps
journal, May 2015


Computational design of self-assembling cyclic protein homo-oligomers
journal, December 2016

  • Fallas, Jorge A.; Ueda, George; Sheffler, William
  • Nature Chemistry, Vol. 9, Issue 4
  • DOI: 10.1038/nchem.2673

High-affinity binders selected from designed ankyrin repeat protein libraries
journal, April 2004

  • Binz, H. Kaspar; Amstutz, Patrick; Kohl, Andreas
  • Nature Biotechnology, Vol. 22, Issue 5, p. 575-582
  • DOI: 10.1038/nbt962

From DARPins to LoopDARPins: Novel LoopDARPin Design Allows the Selection of Low Picomolar Binders in a Single Round of Ribosome Display
journal, February 2014

  • Schilling, Johannes; Schöppe, Jendrik; Plückthun, Andreas
  • Journal of Molecular Biology, Vol. 426, Issue 3
  • DOI: 10.1016/j.jmb.2013.10.026

Functional Selectivity in Cytokine Signaling Revealed Through a Pathogenic EPO Mutation
journal, March 2017


Receptor-mediated dimerization of JAK2 FERM domains is required for JAK2 activation
journal, July 2018

  • Ferrao, Ryan D.; Wallweber, Heidi JA; Lupardus, Patrick J.
  • eLife, Vol. 7
  • DOI: 10.7554/eLife.38089

Efficiency of signalling through cytokine receptors depends critically on receptor orientation
journal, October 1998

  • Syed, Rashid S.; Reid, Scott W.; Li, Cuiwei
  • Nature, Vol. 395, Issue 6701
  • DOI: 10.1038/26773

EGFR Ligands Differentially Stabilize Receptor Dimers to Specify Signaling Kinetics
journal, October 2017


Iterative model building, structure refinement and density modification with the PHENIX AutoBuild wizard
journal, December 2007

  • Terwilliger, Thomas C.; Grosse-Kunstleve, Ralf W.; Afonine, Pavel V.
  • Acta Crystallographica Section D Biological Crystallography, Vol. 64, Issue 1
  • DOI: 10.1107/S090744490705024X

Lineage-Specific Hematopoietic Growth Factors
journal, May 2006


Isolating and engineering human antibodies using yeast surface display
journal, July 2006

  • Chao, Ginger; Lau, Wai L.; Hackel, Benjamin J.
  • Nature Protocols, Vol. 1, Issue 2
  • DOI: 10.1038/nprot.2006.94

Insights into Cytokine–Receptor Interactions from Cytokine Engineering
journal, March 2015


Selecting Agonists from Single Cells Infected with Combinatorial Antibody Libraries
journal, May 2013


Dynamic multiple-target tracing to probe spatiotemporal cartography of cell membranes
journal, July 2008

  • Sergé, Arnauld; Bertaux, Nicolas; Rigneault, Hervé
  • Nature Methods, Vol. 5, Issue 8
  • DOI: 10.1038/nmeth.1233

JAK2 activation by growth hormone and other cytokines
journal, February 2015

  • Waters, Michael J.; Brooks, Andrew J.
  • Biochemical Journal, Vol. 466, Issue 1
  • DOI: 10.1042/BJ20141293

Low-resolution refinement tools in REFMAC 5
journal, March 2012

  • Nicholls, Robert A.; Long, Fei; Murshudov, Garib N.
  • Acta Crystallographica Section D Biological Crystallography, Vol. 68, Issue 4
  • DOI: 10.1107/S090744491105606X

Robust single-particle tracking in live-cell time-lapse sequences
journal, July 2008

  • Jaqaman, Khuloud; Loerke, Dinah; Mettlen, Marcel
  • Nature Methods, Vol. 5, Issue 8
  • DOI: 10.1038/nmeth.1237

Switching constant domains enhances agonist activities of antibodies to a thrombopoietin receptor
journal, December 2007

  • Kai, Masayuki; Motoki, Kazuhiro; Yoshida, Hideaki
  • Nature Biotechnology, Vol. 26, Issue 2
  • DOI: 10.1038/nbt1376

Dimerization of the Erythropoietin Receptor Transmembrane Domain in Micelles
journal, February 2007


The Erythropoietin Receptor Transmembrane Domain Mediates Complex Formation with Viral Anemic and Polycythemic gp55 Proteins
journal, August 2003

  • Constantinescu, Stefan N.; Keren, Tzvia; Russ, William P.
  • Journal of Biological Chemistry, Vol. 278, Issue 44
  • DOI: 10.1074/jbc.M302974200

Features and development of Coot
journal, March 2010

  • Emsley, P.; Lohkamp, B.; Scott, W. G.
  • Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 4
  • DOI: 10.1107/S0907444910007493

Tuning Cytokine Receptor Signaling by Re-orienting Dimer Geometry with Surrogate Ligands
journal, March 2015


REFMAC 5 for the refinement of macromolecular crystal structures
journal, March 2011

  • Murshudov, Garib N.; Skubák, Pavol; Lebedev, Andrey A.
  • Acta Crystallographica Section D Biological Crystallography, Vol. 67, Issue 4
  • DOI: 10.1107/S0907444911001314

An agonist-induced conformational change in the growth hormone receptor determines the choice of signalling pathway
journal, May 2008

  • Rowlinson, Scott W.; Yoshizato, Hideo; Barclay, Johanna L.
  • Nature Cell Biology, Vol. 10, Issue 6
  • DOI: 10.1038/ncb1737

Automated refinement of macromolecular structures at low resolution using prior information
journal, September 2016

  • Kovalevskiy, Oleg; Nicholls, Robert A.; Murshudov, Garib N.
  • Acta Crystallographica Section D Structural Biology, Vol. 72, Issue 10
  • DOI: 10.1107/S2059798316014534

IL-10 Elicits IFNγ-Dependent Tumor Immune Surveillance
journal, December 2011


Phaser crystallographic software
journal, July 2007

  • McCoy, Airlie J.; Grosse-Kunstleve, Ralf W.; Adams, Paul D.
  • Journal of Applied Crystallography, Vol. 40, Issue 4
  • DOI: 10.1107/S0021889807021206

Exploiting structure similarity in refinement: automated NCS and target-structure restraints in BUSTER
journal, March 2012

  • Smart, Oliver S.; Womack, Thomas O.; Flensburg, Claus
  • Acta Crystallographica Section D Biological Crystallography, Vol. 68, Issue 4
  • DOI: 10.1107/S0907444911056058

Library Generation by Gene Shuffling
journal, January 2014

  • Meyer, Adam J.; Ellefson, Jared W.; Ellington, Andrew D.
  • Current Protocols in Molecular Biology, Vol. 105, Issue 1
  • DOI: 10.1002/0471142727.mb1512s105

X-Ray Diffraction data from dimeric DARPin E2C, source of 6MOG structure
dataset, January 2019


PARP1 exhibits enhanced association and catalytic efficiency with γH2A.X-nucleosome
journal, December 2019


Synthetic antibodies against BRIL as universal fiducial marks for single−particle cryoEM structure determination of membrane proteins
journal, March 2020

  • Mukherjee, Somnath; Erramilli, Satchal K.; Ammirati, Mark
  • Nature Communications, Vol. 11, Issue 1
  • DOI: 10.1038/s41467-020-15363-0

Cavin1 intrinsically disordered domains are essential for fuzzy electrostatic interactions and caveola formation
journal, February 2021


Overview of the CCP4 suite and current developments.
text, January 2011

  • Winn, Martyn D.; Ballard, Charles C.; Cowtan, Kevin D.
  • Apollo - University of Cambridge Repository
  • DOI: 10.17863/cam.52322

PHENIX: a comprehensive Python-based system for macromolecular structure solution.
text, January 2010

  • Adams, Paul D.; Afonine, Pavel V.; Bunkóczi, Gábor
  • Apollo - University of Cambridge Repository
  • DOI: 10.17863/cam.45787

X-Ray Diffraction data from dimeric DARPin E2C, source of 6MOG structure
dataset, January 2019


Works referencing / citing this record:

Mechanism of homodimeric cytokine receptor activation and dysregulation by oncogenic mutations
text, January 2019


Mechanism of homodimeric cytokine receptor activation and dysregulation by oncogenic mutations
journal, February 2020