Ronald Koder

Professor

co-Director, the CCNY High Throughput Experimentation Core Facility

Main Affiliation

Physics

Additional Departments/Affiliated Programs

Areas of Expertise/Research

  • Machine Learning
  • Biodesign
  • Synthetic Biology
  • Experimental Biological Physics
  • Biosensors
  • Nuclear Magnetic Resonance
  • Biomaterials

Building

Center for Discovery and Innovation

Office

CDI 1.315

Phone

212-650-5583

212-650-5502 (lab)

Ronald Koder

Profile

  • 2022-present  Professor                       The City College of New York Dept. of Physics
  • 2012-2022      Associate Professor       The City College of New York Dept. of Physics
  • 2007-2012      Assistant Professor        The City College of New York Dept. of Physics
  • 2002-2004      Adjunct Professor           Swarthmore College Dept. of Chemistry   
  • 2000-2006      Postdoctoral Fellow        The University of Pennsylvania School of Medicine

Education

B.S.  The University of Missouri
Ph.D.  The Johns Hopkins University
Post-Doctoral  The University of Pennsylvania

Courses Taught

Phys V3800   Biophysics
Phys 422    Biophysics
Phys 315    Medical Physics

Research Interests

experimental biological physics; machine learning; biodesign; synthetic biology; nuclear magnetic resonance; biosensors; protein materials

Publications - past five years

Google Scholar

(56) Nanda, V., Siess, J. Jagilinki, B. Hazen, R., Kamerlin, S.C.L., Koder, R.L., Noy, D. Silberg, J.J., Tezcan, F.A., Ulijn, R., Yee, N., Falkowski, P.G. On the Emergence of Metabolism: the Evolution of Proteins that Powered Life (2025) Phil. Trans. Royal Soc. B: Biol. Sci. 380:20240090

(55) Kim, M., McCann, J.C., Fortner, J., Ewelina Randall, Chen, C., Chen, Y., Yaari, Z., Wang, H., Koder, R.L, Heller, D.A. Quantum defect sensitization via phase-changing supercharged antibody fragments. (2024) J. Amer. Chem. Soc. 146(18):12454–12462

(54) Jamhawi, N.M., Koder, R.L., Wittebort, R.J. Elastin Recoil is Driven by the Hydrophobic Effect. (2024) Proc. Nat. Acad. Sci. USA. 121(11):e2304009121

(53) Nanda, V., McGuinness, K.N., Fehon, N., Feeehan, R.,Miller, M., Mutter, A.C., Rybak, L., Nam, J. AbuSalim, J.E., Atkinson, J.T., Heidari, H., Losada, N., Kim, J.D., Koder, R.L., Lu, Y., Silberg, J., Slusky, J., Falkowski, P.F. The energetics and evolution of oxidoreductases in deep time (2024) Prot. Struct. Funct. Bioinf. 92(8):52-59

(52) Zhang,L., Brown, M.C., Mutter, A.C., Cooley, J.W., Koder R.L. Protein Dynamics Govern the Oxyferrous State Lifetime of an Artificial Oxygen Transport Protein (2023) Biophysical J 122(22):4440-4450

(51) Hutchins, G.H, Noble, C.E.M, Bunzel, H.A., Williams, C., Dubiel, P., Vadiv, S.K.N, Molinaro, P.M., Barringer, R., Blackburn, H., Hardy, B.J., Parnell,, A.E., Koder, R.L., Crump, M., Schaffitzel, C., Oliveira, A.S.F., Mullholland, A.J., Anderson, J.L.R. An expandable, modular de novo protein platform for precision redox engineering (2023) Proc. Nat. Acad. Sci. USA. 120(31): e2306046120

(50) Timm, J., Pike, D.L., Mancini, J.A., Tyryshkin, A.M., Poudel, S., Siess, J., Molinaro, Paul M., McCann, J.C., Waldie, K.M., Koder, R.L., Falkowski, P.G., Nanda, V. Design of a Minimal di-Nickel Hydrogenase Peptide (2023) Science Advances 9:eabq199

(49) Van Galen, C.J., Pauszek, R.F., Koder, R.L., Stanley, R.J. Flavin Charge Redistribution Upon
Optical Excitation is Independent of Solvent Polarity (2023) Journal of Physical Chemistry B 127(3):661–672

(48) Ceballos, A.V., Diaz, J.A., Preston, J.M., Vairamon, C., Shen, C., Koder, R.L., Elbaum- Garfinkle, S. Liquid to Solid Transition of Elastin Condensates (2022) Proc. Nat. Acad. Sci. USA 119 (37):e2202240119
(47) Willett, E., Jiang, V., Koder, R.L., Banta, S. ATP-NAD+ Kinases Are Reversible, and NAD+ Product Inhibition is Responsible for the Irreversibility of the Human Enzyme (2022) Biochemistry 61(17):1862-1873

(46) McCann, J.C., Pike, D.L., Brown, M.C., Crouse, D.T., Nanda, V. Koder, R.L. Computational design of a sensitive, selective phase-changing sensor protein for the VX nerve agent. Science Advances. (2022) 8:eabh3421

(45) Andersen, E.M.E., Khoo, J., Wang, H. Koder, R.L. Oxidation/reduction and photophysical properties of isomeric forms of Safranin. PLOS One (2022) 17(6):e0265105

(44) Satapathy, S., Liu, B., Deshmukh, P., Molinaro, P.M., Khatoniar, M. Koder, R.L., Menon, V.M. Thermalization of fluorescent protein exciton-polaritons at room temperature. Advanced Materials (2022) 34:2109107

(43) Horoszko, C.P., Schnatz, P.J., Budhathoki-Uprety, J., Rao-Pothuraju, R., Koder, R.L., Heller, D.A. Non-Covalent Coatings on Carbon Nanotubes Mediate Photosensitizer Interaction. ACS Applied Materials & Interfaces. (2021) 13(43):51343-51350

(42) Carvajal, F.C.A., Preston, J.M., Jamhawi, N.M., Sabo, T.M., Aramani, J., Wittebort, R.J., Koder R.L. Dynamics in Natural and Designed Elastins and Their Relation to Elastic Fiber Structure and Recoil. Biophysical J. (2021) 120(20):4623-4634

(41) Schnatz, P.J., Brisendine, J.M., Laing, C.C., Everson, B.H., French, C.A., Molinaro, P.M., Koder, R.L. Designing Heterotropically-Activated Allosteric Conformational Switches Using Supercharging Proc. Nat. Acad. Sci. USA (2020) 117(10):5291-5297