Current Position
Associate Professor in the Department of Physics & Astronomy at California State University, Northridge
Education
- 2008 Ph.D., Department of Physics, University of Alberta, Canada.
- Advisors: Dr. Jack Tuszynski and Dr. Andriy Kovalenko
- 2000 B.Sc. Specialization Physics. University of Alberta, Canada.
Research Experience
- Postdoctoral Associate
- BioMaPS Institute, Rutgers University, USA.
- Advisor: Dr. David A. Case
- Postdoctoral Fellow
- Department of Mechanical Engineering, University of Alberta, Canada
- National Institute for Nanotechnology, National Research Council, Canada.
- Advisor: Dr. Andriy Kovalenko
- Postdoctoral Fellow
- Department of Oncology, University of Alberta, Canada
- Advisor: Dr. Jack Tuszynski
- Industrial Internship
- Mathematics of Information Technology and Complex Systems (MITACS)
- National Institute for Nanotechnology, Canada
- Supervisor: Dr. Andriy Kovalenko
- Research Assistant
- Natural Science and Engineering Research Council of Canada Undergraduate Summer Research Assistant
- Department of Physics, Simon Fraser University, Canada
- Supervisor: Dr. Jenifer Thewalt
Teaching
- PHYS 100B General Physics II
- Electricity and magnetism, light, and modern physics for non-physics majors.
- PHYS 227 Physics III
- Introduction to thermodynamics, relativity, quantum mechanics, atomic physics and particle physics for physics majors.
- PHYS 365 Experimental Physics I
- Introduction to computational physics.
- PHYS 490 Computer Applications in Physics
- Upper division computational physics and numerical methods.
- PHYS 431 Thermodynamics and Statistical Mechanics
- Upper division thermodynamics and statistical mechanics of weakly interacting classical and quantum systems.
Funding
Current Funding
PI, National Science Foundation Grant #2102668
Co-PI, Research Corporation for Science Advancement Cottrell Collaborative Award
Sponsor, Research Corporation for Science Advancement Cottrell Postbac Award
Past Funding
Extreme Science and Engineering Discovery Environment (XSEDE) Research Allocation TG-MCB190048
Research Corporation for Science Advancement Cottrell Scholar Award #23967
Principle Investigator, National Science Foundation Grant #1566638
California State University Program for Education and Research in Biotechnology (CSUPERB) New Investigator Grant
Refereed Publications
[1] Casillas L, Grigorian VM, Luchko T (2023) Identifying systematic
force field errors using a 3D-RISM element counting
correction. Molecules, 28(3):925. https://doi.org/10.3390/molecules28030925
[2] Greene D, Barton M, Luchko T, Shiferaw Y (2022) Molecular dynamics
simulations of the cardiac ryanodine Receptor2 type 2
(RyR2) gating mechanism. Journal of Physical Chemistry
B, 126(47):9790–9809. https://doi.org/10.1021/acs.jpcb.2c03031
[3] Greene D, Luchko T, Shiferaw Y (2022) The role of subunit
cooperativity on ryanodine receptor 2 calcium signaling. Biophysical
Journal, https://doi.org/10.1016/j.bpj.2022.11.008
[4] Wilson L, Krasny R, Luchko T (2022) Accelerating the 3D
reference interaction site model theory of molecular solvation with
treecode summation and cut-offs. Journal of Computational
Chemistry, 43(18):1251–1270. https://doi.org/10.1002/jcc.26889
[5] Gray JG, Giambaşu GM, Case DA, Luchko T (2022) Integral equation
models for solvent in macromolecular crystals. The Journal of
Chemical Physics, 156(1):014801. https://doi.org/10.1063/5.0070869
[6] Greene D, Barton M, Luchko T, Shiferaw Y (2021) Computational
Analysis of Binding Interactions
between the Ryanodine Receptor
Type 2 and Calmodulin. The Journal of
Physical Chemistry B, 125(38):10720–10735. https://doi.org/10.1021/acs.jpcb.1c03896
[7] Olson B, Cruz A, Chen L, Ghattas M, Ji Y, Huang K, Ayoub S, Luchko
T, McKay DJ, Kurtzman T (2020) An online repository of solvation
thermodynamic and structural maps of
SARS-CoV-2 targets. Journal of
Computer-Aided Molecular Design, 34(12):1219–1228. https://doi.org/10.1007/s10822-020-00341-x
[8] McMillin PJ, Alegrete M, Peric M, Luchko T (2020) Electron
paramagnetic resonance measurements of four nitroxide probes in
supercooled water explained by molecular dynamics simulations. The
Journal of Physical Chemistry B, 124(19):3962–3972. https://doi.org/10.1021/acs.jpcb.0c00684
[9] Tsednee T, Luchko T (2019) Closure for the
Ornstein-Zernike equation with pressure and
free energy consistency. Physical Review E, 99(3):032130. https://doi.org/10.1103/PhysRevE.99.032130
[10] Nguyen C, Yamazaki T, Kovalenko A, Case DA, Gilson MK, Kurtzman T,
Luchko T (2019) A molecular reconstruction approach to site-based
3D-RISM and comparison to GIST
hydration thermodynamic maps in an enzyme active site. PloS
One, 14(7):e0219473. https://doi.org/10.1371/journal.pone.0219473
[11] Johnson J, Case DA, Yamazaki T, Gusarov S, Kovalenko A, Luchko T
(2016) Small molecule hydration energy and entropy from
3D-RISM. Journal of Physics: Condensed Matter,
28(34):344002. https://doi.org/10.1088/0953-8984/28/34/344002
[12] Luchko T, Blinov N, Limon GC, Joyce KP, Kovalenko A (2016)
SAMPL5: 3D-RISM partition coefficient
calculations with partial molar volume corrections and solute
conformational sampling. Journal of Computer-Aided Molecular
Design, :1–13. https://doi.org/10.1007/s10822-016-9947-7
[13] Giambaşu GM, Gebala MK, Panteva MT, Luchko T, Case DA, York DM
(2015) Competitive interaction of monovalent cations with
DNA from 3D-RISM. Nucleic Acids
Research, :gkv830. https://doi.org/10.1093/nar/gkv830
[14] Giambaşu^* GM, Luchko^* T, Herschlag D, York DM, Case DA (2014) Ion
counting from explicit-solvent simulations and 3D-RISM.
Biophysical Journal, 106(4):883–894. https://doi.org/10.1016/j.bpj.2014.01.021
[15] Joung IS, Luchko T, Case DA (2013) Simple electrolyte solutions:
Comparison of DRISM and molecular dynamics results for
alkali halide solutions. J Chem Phys, 138:044103. https://doi.org/doi:10.1063/1.4775743
[16] Luchko T, Case DA (2012) Implicit solvent models and electrostatics
in molecular recognition. Protein-ligand interactions,
:171–189. https://doi.org/10.1002/9783527645947.ch9/summary
[17] Luchko T, Joung IS, Case DA (2012) Integral equation theory of
biomolecules and electrolytes. Innovations in biomolecular modeling
and simulation, :51–86. https://doi.org/10.1039/9781849735049-00051
[18] Freedman H, Luchko T, Luduena RF, Tuszynski JA (2011) Molecular
dynamics modeling of tubulin C-terminal tail interactions
with the microtubule surface. Proteins, 79(10):2968–2982. https://doi.org/10.1002/prot.23155
[19] Genheden S, Luchko T, Gusarov S, Kovalenko A, Ryde U (2010) An
MM/3D-RISM approach for ligand binding affinities. J
Phys Chem B, 114(25):8505–8516. https://doi.org/10.1021/jp101461s
[20] Luchko T, Gusarov S, Roe DR, Simmerling C, Case DA, Tuszynski J,
Kovalenko A (2010) Three-dimensional molecular theory of solvation
coupled with molecular dynamics in Amber. J Chem Theory
Comput, 6(3):607–624. https://doi.org/10.1021/ct900460m
[21] Bennett MJ, Chik JK, Slysz GW, Luchko T, Tuszynski J, Sackett DL,
Schriemer DC (2009) Structural mass spectrometry of the \(\alpha\beta\)-tubulin dimer supports a
revised model of microtubule assembly. Biochemistry,
48:4858–4870. https://doi.org/10.1021/bi900200q
[22] Barakat KH, Huzil JT, Luchko T, Jordheim L, Dumontet C, Tuszynski J
(2009) Characterization of an inhibitory dynamic pharmacophore for the
ERCC1-XPA interaction using a combined molecular dynamics
and virtual screening approach. J Mol Graph Model, 28:113–130.
https://doi.org/10.1016/j.jmgm.2009.04.009
[23] Tuszyński JA, Malinski W, Carpenter EJ, Luchko T, Torin Huzil J,
Ludeña RF (2008) Tubulin electrostatics and isotype specific drug
binding. Canadian Journal of Physics, 86(4):635–640. https://doi.org/10.1139/p07-199
[24] Luchko T, Huzil JT, Stepanova M, Tuszynski J (2008) Conformational analysis of the
carboxy-terminal tails of human \(\beta\)-tubulin isotypes.
Biophys J, 94:1971–1982. https://doi.org/10.1529/biophysj.107.115113
[25] Freedman H, Huzil T, Luchko T, Luduena R, Tuszynski JA (2008)
Identification and characterization of an intermediate taxol binding
site within microtubule nanopores and a mechanism for tubulin isotype
binding selectivity. J Chem Inf Model, 49:424–436. https://doi.org/10.1021/ci8003336
[26] Tuszynski JA, Carpenter EJ, Huzil JT, Malinski W, Luchko T, Luduena
RF (2006) The evolution of the structure of tubulin isoforms and its
potential consequences for the role and function of microtubules in
cells and embryos. Int J Dev Biol, 50:341–58. https://doi.org/10.1387/ijdb.052063jt
[27] Tuszynski JA, Luchko T, Portet S, Dixon JM (2005) Anisotropic elastic properties of microtubules.
Eur Phys J E Soft Matter, 17(1):29–35. https://doi.org/10.1140/epje/i2004-10102-5
[28] Tuszynski JA, Luchko T, Carpenter EJ, Crawford E (2004) Results of
molecular dynamics computations of the structural and electrostatic
properties of tubulin and their consequences for microtubules. J
Comput Theor Nanosci, 1(4):392–397. https://doi.org/10.1166/jctn.2004.042