SlideShare a Scribd company logo
Biological Nanomachine Architecture and Designed Function
with SAXS through DOE/BER:IDAT
“Designing and defining dynamic protein cage
nanoassemblies in solution” Science Advances Dec 14th 2016
IDAT: Greg L. Hura & John A. Tainer collaboration with
UCLA-DOE Institute: Yen Ting Lai and Todd O. Yeates
Emergent DOE/BER methodologies for
using SAXS to inform on protein design
Structure and Mechanisms of Complex Biological Pathways
with Combined X-ray Methods through DOE/BER:IDAT
Polycomb repressive complex 2 structure with inhibitor reveals a mechanism of
activation and drug resistance NATURE COMMUNICATIONS Industrial
Collaborators: Pfizer FEB 10 2016
Scaling Atomic to Cellular Distances
for Microbial Epigenetic Control
Cellular X-ray Tomography
Mutant 1
Mutant 2
Hammel M, Larabell C. Tainer JA et al
Science Advances July 2016
Molecular architecture of the human sperm IZUMO1 and egg
JUNO fertilization complex
NATURE By: Aydin, Halil; et al. JUN 23 2016
Biology requires complex
protein and DNA
assemblies that can only
be characterized by
multiple techniques at
multiple scales
An Intrinsically Disordered APLF Links Ku, DNA-
PKcs and XRCC4-DNA Ligase IV in an Extended
Flexible Non-Homologous End Joining Complex.
JBC By:Hammel M, Tainer JA, et al NOV 14 2016

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2016 dec idat-mbib-do_ehighlight2016

  • 1. Biological Nanomachine Architecture and Designed Function with SAXS through DOE/BER:IDAT “Designing and defining dynamic protein cage nanoassemblies in solution” Science Advances Dec 14th 2016 IDAT: Greg L. Hura & John A. Tainer collaboration with UCLA-DOE Institute: Yen Ting Lai and Todd O. Yeates Emergent DOE/BER methodologies for using SAXS to inform on protein design
  • 2. Structure and Mechanisms of Complex Biological Pathways with Combined X-ray Methods through DOE/BER:IDAT Polycomb repressive complex 2 structure with inhibitor reveals a mechanism of activation and drug resistance NATURE COMMUNICATIONS Industrial Collaborators: Pfizer FEB 10 2016 Scaling Atomic to Cellular Distances for Microbial Epigenetic Control Cellular X-ray Tomography Mutant 1 Mutant 2 Hammel M, Larabell C. Tainer JA et al Science Advances July 2016 Molecular architecture of the human sperm IZUMO1 and egg JUNO fertilization complex NATURE By: Aydin, Halil; et al. JUN 23 2016 Biology requires complex protein and DNA assemblies that can only be characterized by multiple techniques at multiple scales An Intrinsically Disordered APLF Links Ku, DNA- PKcs and XRCC4-DNA Ligase IV in an Extended Flexible Non-Homologous End Joining Complex. JBC By:Hammel M, Tainer JA, et al NOV 14 2016

Editor's Notes

  1. The DOE/BER funded IDAT (Integrated Diffraction Analysis Technologies) program supports combining two biophysical techniques of SAXS (small angle X-ray scattering) and MX (Macromolecular Crystallography). When IDAT started SAXS was a niche technique but because we made use of significant and wide spread innovation in MX for SAXS, we have made SAXS accessible to hundreds of groups. A recently demonstrated “killer app” of SAXS is in the realm of macromolecular engineering. In Science, Nature and other journals this year SAXS we and IDAT supported users are creating novel structures with profound impact. Many constructs are also being patented with SAXS data. An example is the large (600kDa) self- assembling pyramid that expands, collapses or disassembles in response to solution conditions. We will build off of this structure to carry payloads for a variety of applications.
  2. The joint application of SAXS, MX and other technologies is at the core of IDAT. It is well recognized that biology spans many scales. By combining MX and SAX we span the atomic to intra-cellular scale as demonstrated in many publications where IDAT collaborated with users. We have gone further and added X-ray Tomography with another synchrotron beamline (BER funded NCXT) to visualize the impact of changes to one protein in bacteria. The protein, HU, is modular in that it can either bind to an identical copy of itself forming an HU or it can bind to a different form making HU. These two forms appear during different stages of bacterial growth, creating different degrees of compaction in its DNA. We can visualize this compaction and atomically identify the mechanism using the combined techniques.