David Ramírez
dmramirez@wpi.edu

Department of Chemistry and Biochemistry
Worcester Polytechnic Institute
60 Prescott St.
Room 4012, Gateway Park
Worcester, MA 01605
phone: 508-831-5731


I carried out my undergraduate studies in Chemistry (Universidad Distrital Francisco José de Caldas – 2009) and Pharmacy (Universidad Nacional de Colombia – 2012) in Colombia. Then, in 2016 I finished my PhD in Applied Sciences at the Center for Bioinformatics and Molecular Simulations at Universidad de Talca – Chile, where I studied the structure-function relationship and the molecular pharmacology of ion channels and other membrane proteins using theoretical and experimental approaches.
I joined Argüello’s Lab to unravel the mechanisms of copper homeostasis in bacteria focused on membrane proteins by using biochemistry and system biology methods as well as structural bioinformatics approaches.
PUBLICATIONS
Ojeda, P. G., Ramírez, D., Alzate-morales, J., Caballero, J., Kaas, Q., & Gonzalez, W. (2017). Computational Studies of Snake Venom Toxins. Toxins, 10(8), 1–24.

Ramírez, D., Gonzalez, W., Fissore, R., Carvacho, I. (2017) Conotoxins as Tools to Understand the Physiological Function of Voltage-Gated Calcium (CaV) Channels. Marine drugs. 15:313.

Ramírez, D., Arévalo, B., Martínez, G., Rinné, S., Sepúlveda, F., Decher, N. & González, W. (2017) Side fenestration provide and ‘anchor’ for stable binding of A1899 to the pore of TASK-1 potassium channel. Molecular Pharmaceutics. 14(7):2197–2208.

Jørgensen, M., Xu, D., Crocoll, C., Ramírez, D., Motawia, M., Olsen, C., Nour-Eldin, H., and Halkier, B. (2017) Origin and evolution of a transporter substrate specificity. eLife 2017;6:e19466.

Resende, L., Ramos, R., Collaço, R., Simioni, L., Ramírez, D., Gonzalez, W., Soares, A., Calderon, L., Marangoni, S., and Da Silva, D. (2017) Exploring and understanding the functional role, and biochemical and structural characteristics of an acidic phospholipase A2, AplTx-I, purified from Agkistrodon piscivorus leucostoma snake venom. Toxicon. 127:22-36.

Almeida, J., Lancellotti, M., Soares, A., Calderon, L., Ramírez, D., González, W., Marangoni, S., and Da Silva, S. (2016) CoaTx-II, a new dimeric Lys49 phospholipase A2 from Crotalus oreganus abyssus snake venom with bactericidal potential: Insights into its structure and biological roles.Toxicon. 120:147-158.

Rodríguez Y., Gutiérrez M., Ramírez D., Alzate-Morales J., Bernalc C., Güizac F., Romero A. (2016) Novel N-allyl/propargyl tetrahydroquinolines: Synthesis via three-component cationic imino Diels-Alder reaction, binding prediction and evaluation as cholinesterase inhibitors. Chemical Biology & Drug Design. 88(4):498-510.

Ramírez D., Caballero J. (2016) Is it reliable the use of common molecular docking methods to compare the binding affinities of pair of enantiomers to their protein target? International Journal of Molecular Sciences. 17(4):525.

Ramírez D. (2016) Computational methods applied to rational drug design. The Open Medical Chemistry Journal. 10:35-48.

Goldstein1 M., Rinné S., Kiper A., Ramírez D., Netter M., Bustos D., Ortiz-Bonnin D., González W., Decher N. (2016) Functional mutagenesis screens reveal the ‘cap structure’ formation in disulfide-bridge free TASK channels. Scientific Reports. 6:19492.

Kiper A., Rinné S., Rolfes C., Ramírez D., Seebohm G., Netter M., González W., Decher N. (2015) Kv1.5 blockers preferentially inhibit TASK-1 channels: TASK-1 as a target against atrial fribrillation and obstructive sleep apnea? Pflügers Archiv – European Journal of Physiology. 467:1081-1090.

González W., Valdebenito B., Caballero J., Riadi G., Riedelsberger J., Martínez G., Ramírez D., Zuñiga L., Sepúlveda F., Dreyer I., Janta M., Becker D. (2015) K2P channels in plants and animals. Pflügers Archiv – European Journal of Physiology. 467:1091- 1104.

Sabogal-Arango A., Barreto G., Ramírez D., González-Mendoza J., Barreto V., Morales L., González J. (2014) Computational insights of the interaction among Sea anemones Neurotonxins and Kv1.3 Channels. Bioinformatics and Biology insights. 8:73-81.