Welcome to the Jorgensen Lab

For many years, the Jorgensen Research Group has been at the forefront of computational chemistry and molecular design. Below is an outline of our progress:

1976-82QM studies of organic ions & ion-molecule complexes
1978- MC for liquids, OPLS force field development
1980- Solvent effects on conformational equilibria
1980-95Development of CAMEO for prediction of products of organic reactions
1983 TIP3P & TIP4P water models
1984 Free-energy profiles for SN2 reactions in solution
1985 1st FEP calculation: CH3CH3 --> CH3OH in water
1985- FEP for reactions in solution (QM + MM), ΔGhyd, ion-pairing, pKas, log P, hydrophobic effects, etc.
1988-96Molecular recognition/organic host-guest complexes
1989 Secondary electrostatic effects for G-C, A-T, etc.
1987- MD and MC for proteins, denaturation, folding, enzymatic rxns
1996- FEP/MC for protein-ligand binding
1997- Full QM/MM for organic & enzymatic reactions
2000- Structure-based drug design, ADME predictions
2001- Semiempirical molecular orbital method development
2003- FEP-guided design and synthesis of enzyme inhibitors
2009- Discovery of MIF antagonists and agonists
2011- Report of the most potent, non-toxic anti-HIV agents ever discovered

Newest Publications

381. Evaluation of CM5 Charges for Condensed-Phase Modeling.
Vilseck, J. Z.; Tirado-Rives, J.; Jorgensen, W. L.
J. Chem. Theory Comput. 2014, Ahead of Print, . doi:10.1021/ct500016d.

380. Cooperative Effects and Optimal Halogen Bonding Motifs for Self-Assembling Systems.
Yan, X. C.; Schyman, P.; Jorgensen, W. L.
J. Phys. Chem. A 2014, ASAP, . doi:10.1021/jp501553j.

379. Enhanced Monte Carlo Sampling through Replica Exchange with Solute Tempering.
Cole, D. J.; Tirado-Rives, J.; Jorgensen, W. L.
J. Chem. Theory Comput. 2014, 10, 565-571. doi:10.1021/ct400989x.

378. Foundations of Biomolecular Modeling.
Jorgensen, W. L.
Cell 2013, 155, 1199-1202. doi:10.1016/j.cell.2013.11.023.

377. Picomolar Inhibitors of HIV Reverse Transcriptase Featuring Bicyclic Replacement of a Cyanovinylphenyl Group.
Lee, W. G.; Gallardo-Macias, R.; Frey, K. M.; Spasov, K. A.; Bollini, M.; Anderson, K. S.; Jorgensen, W. L.
J. Am. Chem. Soc. 2013, 135, 16705-16713. doi:10.1021/ja408917n.

376. Optimization of diarylazines as anti-HIV agents with dramatically enhanced solubility.
Bollini, M.; Cisneros, J. A.; Spasov, K. A.; Anderson, K. S.; Jorgensen, W. L.
Bioorg. Med. Chem. Lett. 2013, 23, 5213-5216. doi:10.1016/j.bmcl.2013.06.091.

375. Extension into the entrance channel of HIV-1 reverse transcriptase-Crystallography and enhanced solubility.
Bollini, M.; Frey, K. M.; Cisneros, J. A.; Spasov, K. A.; Das, K.; Bauman, J. D.; Arnold, E.; Anderson, K. S.; Jorgensen, W. L.
Bioorg. Med. Chem. Lett. 2013, 23, 5209-5212. doi:10.1016/j.bmcl.2013.06.093.

374. Bifunctional Inhibition of Human Immunodeficiency Virus Type 1 Reverse Transcriptase: Mechanism and Proof-of-Concept as a Novel Therapeutic Design Strategy.
Bailey, C. M.; Sullivan, T. J.; Iyidogan, P.; Tirado-Rives, J.; Chung, R.; Ruiz-Caro, J.; Mohamed, E.; Jorgensen, W. L.; Hunter, R.; Anderson, K . S.
J. Med. Chem. 2013, 56, 3959-3968. doi:10.1021/jm400160s.

373. Limiting Cardiac Ischemic Injury by Pharmacological Augmentation of Macrophage Migration Inhibitory Factor-AMP-Activated Protein Kinase Signal Transduction.
Wang, J.; Tong, C.; Yan, X.; Yeung, E.; Gandavadi, S.; Hare, A. A.; Du, X.; Chen, Y.; Xiong, H.; Ma, C.; Leng, L.; Young, L. H.; Jorgensen, W. L.; Li, J.; Bucala, R.
Circulation 2013, 128, 225-236. doi:10.1161/CIRCULATIONAHA.112.000862.

For more details about the specifics of the research, please see the publications page and the research page.

Group picture


Group picture


Group picture

At the 243rd National American Chemical Society meeting, in San Diego, CA, March 2012, Professor Jorgensen recieved the Joel Henry Hildebrand Award in Theoretical and Experimental Chemistry of Liquids. This award is sponsored by the Exxon Mobil Research and Engineering Company and was presented by Dr. Thomas F. Degnan, Jr. Manager, Breakthrough and Leads Generation, Exxon Mobil Research and Engineering Company. Congratulations Dr. Jorgensen!