研究领域

Biochemistry/Physical Chemistry

Chemical Diversity: A major competency of BON is in the creation, generation and searching of chemical space. We have multiple methods for accomplishing this. We are currently using the technique of mRNA display to search libraries of peptides and proteins as large as 1013-14 and select those with the desired traits. We have also developed the capability to synthetically create libraries on the order of 106 peptides or other synthetic chemical structures using the kind of light directed synthesis that is used in the generation of DNA chips. We have generalized the chemistry to be used for other kinds of compounds that can be constructed from building block components. Synthetic Antibodies (Synbodies): We are collaborating with the Biodesign Institute's Center for Innovations in Medicine to apply our chemical diversity capability to the production of synthetic antibodies. Here, we use various methods to search chemical space for weak binders and then orient them to create systems with high affinity and specificity, mimicking antibody function. Alanine scan generated using light-directed peptide synthesis procedures developed in-house. Electrosynthesis array from Combimatrix; one of our platforms for developing peptide arrays. Creation Generation of Catalysts for Energy Conversion using Patterned Synthesis: We have utilized our directed synthetic chemical diversity platform (described above) to create tens of thousands of potential electro-catalysts directly on electrodes. We are synthesizing libraries of metal binding peptides to search for new water splitting catalysts that mimic the activity of the oxygen evolving complex of photosystem II in collaboration with ASU professors James Allen and JoAnn Williams of the chemistry and biochemistry department and Trevor Thornton of the electrical engineering department. Structure of Photolyase Optically Directed Cellular Evolution: We are also extending our optical patterning of chemistry to cells. We have developed a means of patterning cell growth on a surface using the photolyase repair system to affect light activated rescue from cell death. This makes it possible to observe a large number of cells on a surface and then select a subset to allow to grow while killing the remainder. Ultrafast Laser Spectroscopy and Microscopy: BON members manage ASUa€?s ultrafast laser spectroscopy and microscopy facility, and this represents another of our key competencies. The facility is well equipped with state-of-arts ultrafast lasers and detection systems, including 2 transient absorption spectrometers, a kilohertz femtosecond up-conversion apparatus, a single photon counting system, a streak camera fluorescence FLIM spectrometer, 2 microscope systems for single molecule spectroscopy. Here it is possible to perform femtosecond timescale spectroscopy in many different forms (absorbance, fluorescence, etc.) both in solution, on surfaces, in living cells or tissues and at the single molecule level. Photosynthetic reaction center from Rhodobacter sphaeroides The Role of Protein Dynamics in Photosynthetic Electron Transfer: We have a fundamental program in the study of the ultrafast electron transfer reactions of bacterial photosynthetic reaction centers. This work utilizes ASUa€?s ultrafast laser facility to follow these electron transfer reactions on the femtosecond to picosecond timescale. Recently, we have discovered that the kinetics of electron transfer in this system is directly limited by protein motion and we are continuing to explore how this complex protein dance serves to mediate biochemical reaction. The structure of a single nucleosome. Analyzing the Structure and Dynamics of Chromatin: The critical role of chromatin structure in controlling gene expression is becoming more and more evident. Of particular interest to us is the dynamics of the DNA/protein interaction in the nucleosome, the most elemental chromatin structural component. We are using single molecule spectroscopy and AFM to explore the structure and dynamics of these particles as a function of DNA sequence and under the influence of transcription factors that affect gene expression. This work is done in collaboration with the Biodesign Institute's Center for Single Molecule Biophysics (Stuart Lindsay and with Dennis Lohr in ASU's chemistry and biochemistry department).

近期论文

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Wang, Wei; Woodbury, Neal W.. Unstructured interactions between peptides and proteins: Exploring the role of sequence motifs in affinity and specificity. Acta Biomaterialia (2015) Driscoll, B.; Lunceford, C.; Lin, S.; Woronowicz, K.; Niederman, R. A.; Woodbury, N. W.. Energy transfer properties of Rhodobacter sphaeroides chromatophores. PHYSICAL CHEMISTRY CHEMICAL PHYSICS (2014) Dutta, Palash; Levenberg, Symon; Loskutov, Andrey; Jun, Daniel; Saer, Rafael; Beatty, J.; Lin, Su; Liu, Yan; Woodbury, Neal; Yan, Hao. A DNA-Directed Light-Harvesting/Reaction Center System. : Journal of the American Chemical Society (2014) Dutta, Palash; Lin, Su; Loskutov, Andrey; Levenberg, Symon; Jun, Daniel; Saer, Rafael; Beatty, John; Liu, Yan; Yan, Hao; Woodbury, Neal. Reengineering the Optical Absorption Cross-section of Photosynthetic Reaction Centers. Journal of the American Chemical Society (2014) Fu, Jinglin; Yang, Yuhe Renee; Johnson-Buck, Alexander; Liu, Minghui; Liu, Yan; Walter, Nils G.; Woodbury, Neal W.; Yan, Hao. Multi-enzyme complexes on DNA scaffolds capable of substrate channelling with an artificial swinging arm. NATURE NANOTECHNOLOGY (2014) Legutki, Joseph Barten;Zhao, Zhan-Gong;Greving, Matt;Woodbury, Neal; Johnston, Stephen Albert; Stafford, Phillip. Scalable high-density peptide arrays for comprehensive health monitoring. NATURE COMMUNICATIONS (2014) Navalkar, Krupa Arun; Johnston, Stephen Albert; Woodbury, Neal; Galgiani, John N.; Magee, D. Mitchell; Chicacz, Zbigniew; Stafford, Phillip. Application of Immunosignatures for Diagnosis of Valley Fever. CLINICAL AND VACCINE IMMUNOLOGY (2014) Stafford, Phillip; Cichacz, Zbigniew; Woodbury, Neal W.; Johnston, Stephen Albert. Immunosignature system for diagnosis of cancer. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2014) Wang W. Woodbury NW. Selective protein peptide interactions at surfaces. Acta Biomater. (2014) Guo, Zhi; Lin, Su; Woodbury, Neal W. Utilizing the Dynamic Stark Shift as a Probe for Dielectric Relaxation in Photosynthetic Reaction Centers During Charge Separation. JOURNAL OF PHYSICAL CHEMISTRY (2013) LeBard DN, Martin DR, Lin S, Woodbury NW, Matyushov DV. Protein dynamics to optimize and control bacterial photosynthesis. Chemical Science (2013) Liu MH, Fu JL, Heejesen C, Yang YH, Woodbury NW, Gothelf K, Liu Y, Yan H. A DNA tweezer-actuated enzyme nanoreactor. Nature Communications (2013) Pan J, Saer RG, Lin S, Guo Z, Beatty JT, Woodbury NW. The Protein Environment of the Bacteriopheophytin Anion Modulates Charge Separation and Charge Recombination in Bacterial Reaction Centers. Journal of Physical Chemistry B (2013) Saer, Rafael G.; Pan, Jie; Hardjasa, Amelia; Lin, Su; Rosell, Federico; Mauk, A. Grant; Woodbury, Neal W.; Murphy, Michael E. P.; Beatty, J. Thomas. Structural and kinetic properties of Rhodobacter sphaeroides photosynthetic reaction centers containing exclusively Zn-coordinated bacteriochlorophyll as bacteriochlorin cofactors. BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS (2013)