MCB Faculty


Vsevolod Katritch

Assistant Professor of Biological Sciences

Contact Information
E-mail: katritch@usc.edu
Phone: (213) 821-1488
Office: TRF 118

LINKS
Personal Website
 

Education

  • Ph.D. Biophysics and Molecular Biology, Moscow Institute of Physics and Technology
  • B.S. , Moscow Institute of Physics and Technology, 6/1993


  • Postdoctoral Training

    • Research Associate, Scripps Research Institute, 04/01/1999-11/01/2001  

    Description of Research

    Summary Statement of Research Interests
    Dr. Katritch broad scientific interests involve development and application of computational tools to study key biological phenomena, from DNA topology and chromatin folding to understanding molecular basis of receptor signaling and drug action. Current research in his group has been focused on the structure and function of membrane proteins and specifically on the superfamily of G-protein coupled receptors (GPCRs), which is targeted by more than 30% of clinical drugs. The main directions of these studies include (i) deciphering the molecular basis of GPCRs interactions with various ligands, co-factors and downstream effectors (ii) structure-based discovery and optimization of leads and tool compounds with novel functional properties, such as allosteric modulation and signaling bias, (iii) integrative structural biology combining molecular modeling with biophysical (NMR, HDX, EPR, cryo-EM) and biochemical (mutagenesis, chemical crosslinking) data, and putting this data in the context of systems biology of GPCR-mediated pathways. Ultimately this work aims at better understanding of human biology and exploring new venues for rational drug discovery.
    Research Keywords
    molecular modeling, structural bioinformatics, membrane proteins, GPCR, structure-based drug discovery

    Publications


    Journal Article
    • Massink, A., Gutierrez-de-Teran, H., Lenselink, E. B., Ortiz Zacarias, N. V., Xia, L., Heitman, L. H., Katritch, V., Stevens, R. C., AP, I. J. (2015). Sodium Ion Binding Pocket Mutations and Adenosine A2A Receptor Function. Mol Pharmacol. Vol. 87 (2), pp. 305-13.
    • Isberg, V., de Graaf, C., Bortolato, A., Cherezov, V., Katritch, V., Marshall, F. H., Mordalski, S., Pin, J. P., Stevens, R. C., Vriend, G., Gloriam, D. E. (2015). Generic GPCR residue numbers - aligning topology maps while minding the gaps. Trends Pharmacol Sci. Vol. 36 (1), pp. 22-31.
    • Zhang, K., Zhang, J., Gao, Z. G., Zhang, D., Zhu, L., Han, G. W., Moss, S. M., Paoletta, S., Kiselev, E., Lu, W., Fenalti, G., Zhang, W., Muller, C. E., Yang, H., Jiang, H., Cherezov, V., Katritch, V., Jacobson, K. A., Stevens, R. C., Wu, B., Zhao, Q. (2014). Structure of the human P2Y12 receptor in complex with an antithrombotic drug. Nature. Vol. 509 (74982014/03/29), pp. 115-8.
    • Zhang, J., Zhang, K., Gao, Z. G., Paoletta, S., Zhang, D., Han, G. W., Li, T., Ma, L., Zhang, W., Muller, C. E., Yang, H., Jiang, H., Cherezov, V., Katritch, V., Jacobson, K. A., Stevens, R. C., Wu, B., Zhao, Q. (2014). Agonist-bound structure of the human P2Y12 receptor. Nature. Vol. 509 (74982014/05/03), pp. 119-22.
    • Wu, H., Wang, C., Gregory, K. J., Han, G. W., Cho, H. P., Xia, Y., Niswender, C. M., Katritch, V., Meiler, J., Cherezov, V., Conn, P. J., Stevens, R. C. (2014). Structure of a class C GPCR metabotropic glutamate receptor 1 bound to an allosteric modulator. Science. Vol. 344 (61792014/03/08), pp. 58-64.
    • Weierstall, U., James, D., Wang, C., White, T. A., Wang, D., Liu, W., Spence, J. C., Bruce Doak, R., Nelson, G., Fromme, P., Fromme, R., Grotjohann, I., Kupitz, C., Zatsepin, N. A., Liu, H., Basu, S., Wacker, D., Han, G. W., Katritch, V., Boutet, S., Messerschmidt, M., Williams, G. J., Koglin, J. E., Marvin Seibert, M., Klinker, M., Gati, C., Shoeman, R. L., Barty, A., Chapman, H. N., Kirian, R. A., Beyerlein, K. R., Stevens, R. C., Li, D., Shah, S. T., Howe, N., Caffrey, M., Cherezov, V. (2014). Lipidic cubic phase injector facilitates membrane protein serial femtosecond crystallography. Nat Commun. Vol. 5 (2014/02/15), pp. 3309.
    • Wang, C., Wu, H., Evron, T., Vardy, E., Han, G. W., Huang, X. P., Hufeisen, S. J., Mangano, T. J., Urban, D. J., Katritch, V., Cherezov, V., Caron, M. G., Roth, B. L., Stevens, R. C. (2014). Structural basis for Smoothened receptor modulation and chemoresistance to anticancer drugs. Nat Commun. Vol. 5 (2014/07/11), pp. 4355.
    • Wang, C., Wu, H., Evron, T., Vardy, E., Han, G., Huang, X., Hufeisen, S., Mangano, T., Urban, D., Katritch, V., Cherezov, V., Caron, M., Roth, B., Stevens, R. (2014). Structural basis for Smoothened receptor modulation and chemoresistance. Nature Communications. Vol. accepted
    • Kufareva, I., Katritch, V., Participants of, G. D., Stevens, R. C., Abagyan, R. (2014). Advances in GPCR modeling evaluated by the GPCR Dock 2013 assessment: meeting new challenges. Structure. Vol. 22 (8), pp. 1120-39.
    • Kiselev, E., Barrett, M. O., Katritch, V., Paoletta, S., Weitzer, C. D., Brown, K. A., Hammes, E., Yin, A. L., Zhao, Q., Stevens, R. C., Harden, T. K., Jacobson, K. A. (2014). Exploring a 2-Naphthoic Acid Template for the Structure-Based Design of P2Y14 Receptor Antagonist Molecular Probes. ACS Chem Biol. Vol. 9 (12), pp. 2833-42.
    • Katritch, V., Fenalti, G., Abola, E. E., Roth, B. L., Cherezov, V., Stevens, R. C. (2014). Allosteric sodium in class A GPCR signaling. Trends Biochem Sci. Vol. 39 (52014/04/29), pp. 233-244.
    • Fenalti, G., Giguere, P. M., Katritch, V., Huang, X. P., Thompson, A. A., Cherezov, V., Roth, B. L., Stevens, R. C. (2014). Molecular control of delta-opioid receptor signalling. Nature. Vol. 506 (74872014/01/15), pp. 191-6.
    • Wang, C., Wu, H., Katritch, V., Han, G. W., Huang, X. P., Liu, W., Siu, F. Y., Roth, B. L., Cherezov, V., Stevens, R. C. (2013). Structure of the human smoothened receptor bound to an antitumour agent. Nature. Vol. 497 (74492013/05/03), pp. 338-43.
    • Wang, C., Jiang, Y., Ma, J., Wu, H., Wacker, D., Katritch, V., Han, G. W., Liu, W., Huang, X. P., Vardy, E., McCorvy, J. D., Gao, X., Zhou, X. E., Melcher, K., Zhang, C., Bai, F., Yang, H., Yang, L., Jiang, H., Roth, B. L., Cherezov, V., Stevens, R. C., Xu, H. E. (2013). Structural basis for molecular recognition at serotonin receptors. Science. Vol. 340 (61322013/03/23), pp. 610-4.
    • Wacker, D., Wang, C., Katritch, V., Han, G. W., Huang, X. P., Vardy, E., McCorvy, J. D., Jiang, Y., Chu, M., Siu, F. Y., Liu, W., Xu, H. E., Cherezov, V., Roth, B. L., Stevens, R. C. (2013). Structural features for functional selectivity at serotonin receptors. Science. Vol. 340 (61322013/03/23), pp. 615-9.
    • Vardy, E., Mosier, P. D., Frankowski, K. J., Wu, H., Katritch, V., Westkaemper, R. B., Aube, J., Stevens, R. C., Roth, B. L. (2013). Chemotype-selective Modes of Action of kappa-Opioid Receptor Agonists. J Biol Chem. Vol. 288 (482013/10/15), pp. 34470-83.
    • Stevens, R. C., Cherezov, V., Katritch, V., Abagyan, R., Kuhn, P., Rosen, H., Wuthrich, K. (2013). The GPCR Network: a large-scale collaboration to determine human GPCR structure and function. Nat Rev Drug Discov. Vol. 12 (12012/12/15), pp. 25-34.
    • Siu, F. Y., He, M., de Graaf, C., Han, G. W., Yang, D., Zhang, Z., Zhou, C., Xu, Q., Wacker, D., Joseph, J. S., Liu, W., Lau, J., Cherezov, V., Katritch, V., Wang, M. W., Stevens, R. C. (2013). Structure of the human glucagon class B G-protein-coupled receptor. Nature. Vol. 499 (74592013/07/19), pp. 444-9.
    • Liu, W., Wacker, D., Gati, C., Han, G. W., James, D., Wang, D., Nelson, G., Weierstall, U., Katritch, V., Barty, A., Zatsepin, N. A., Li, D., Messerschmidt, M., Boutet, S., Williams, G. J., Koglin, J. E., Seibert, M. M., Wang, C., Shah, S. T., Basu, S., Fromme, R., Kupitz, C., Rendek, K. N., Grotjohann, I., Fromme, P., Kirian, R. A., Beyerlein, K. R., White, T. A., Chapman, H. N., Caffrey, M., Spence, J. C., Stevens, R. C., Cherezov, V. (2013). Serial femtosecond crystallography of G protein-coupled receptors. Science. Vol. 342 (61652013/12/21), pp. 1521-4.
    • Lane, J. R., Chubukov, P., Liu, W., Canals, M., Cherezov, V., Abagyan, R., Stevens, R. C., Katritch, V. (2013). Structure-based ligand discovery targeting orthosteric and allosteric pockets of dopamine receptors. Mol Pharmacol. Vol. 84 (62013/09/12), pp. 794-807.
    • Katritch, V., Cherezov, V., Stevens, R. C. (2013). Structure-function of the G protein-coupled receptor superfamily. Annu Rev Pharmacol Toxicol. Vol. 53 (2012/11/13), pp. 531-56.
    • Gutierrez-de-Teran, H., Massink, A., Rodriguez, D., Liu, W., Han, G. W., Joseph, J. S., Katritch, I., Heitman, L. H., Xia, L., Ijzerman, A. P., Cherezov, V., Katritch, V., Stevens, R. C. (2013). The Role of a Sodium Ion Binding Site in the Allosteric Modulation of the A2A Adenosine G Protein-Coupled Receptor. Structure. Vol. 21 (122013/11/12), pp. 2175-85.
    • Coin, I., Katritch, V., Sun, T., Xiang, Z., Siu, F. Y., Beyermann, M., Stevens, R. C., Wang, L. (2013). Genetically Encoded Chemical Probes in Cells Reveal the Binding Path of Urocortin-I to CRF Class B GPCR. Cell. Vol. 155 (62013/12/03), pp. 1258-69.
    • Wu, H., Wacker, D., Mileni, M., Katritch, V., Han, G. W., Vardy, E., Liu, W., Thompson, A. A., Huang, X. P., Carroll, F. I., Mascarella, S. W., Westkaemper, R. B., Mosier, P. D., Roth, B. L., Cherezov, V., Stevens, R. C. (2012). Structure of the human kappa-opioid receptor in complex with JDTic. Nature. Vol. 485 (73982012/03/23), pp. 327-32.
    • Tosh, D. K., Phan, K., Gao, Z. G., Gakh, A. A., Xu, F., Deflorian, F., Abagyan, R., Stevens, R. C., Jacobson, K. A., Katritch, V. (2012). Optimization of adenosine 5'-carboxamide derivatives as adenosine receptor agonists using structure-based ligand design and fragment screening. J Med Chem. Vol. 55 (92012/04/11), pp. 4297-308.
    • Thompson, A. A., Liu, W., Chun, E., Katritch, V., Wu, H., Vardy, E., Huang, X. P., Trapella, C., Guerrini, R., Calo, G., Roth, B. L., Cherezov, V., Stevens, R. C. (2012). Structure of the nociceptin/orphanin FQ receptor in complex with a peptide mimetic. Nature. Vol. 485 (73982012/05/19), pp. 395-9.
    • Liu, W., Chun, E., Thompson, A. A., Chubukov, P., Xu, F., Katritch, V., Han, G. W., Roth, C. B., Heitman, L. H., AP, I. J., Cherezov, V., Stevens, R. C. (2012). Structural basis for allosteric regulation of GPCRs by sodium ions. Science. Vol. 337 (60912012/07/17), pp. 232-6.
    • Liu, J. J., Horst, R., Katritch, V., Stevens, R. C., Wuthrich, K. (2012). Biased Signaling Pathways in beta2-Adrenergic Receptor Characterized by 19F-NMR. Science. Vol. 335 (60722012/01/24), pp. 1106-10.
    • Katritch, V., Rueda, M., Abagyan, R. (2012). Ligand-guided receptor optimization. Methods Mol Biol. Vol. 857 (2012/02/11), pp. 189-205.
    • Katritch, V., Cherezov, V., Stevens, R. C. (2012). Diversity and modularity of G protein-coupled receptor structures. Trends Pharmacol Sci. Vol. 33 (12011/10/29), pp. 17-27.
    • Deflorian, F., Kumar, T. S., Phan, K., Gao, Z. G., Xu, F., Wu, H., Katritch, V., Stevens, R. C., Jacobson, K. A. (2012). Evaluation of Molecular Modeling of Agonist Binding in Light of the Crystallographic Structure of an Agonist-Bound A(2A) Adenosine Receptor. J Med Chem. Vol. 55 (12011/11/23), pp. 538-52.
    • Chun, E., Thompson, A. A., Liu, W., Roth, C. B., Griffith, M. T., Katritch, V., Kunken, J., Xu, F., Cherezov, V., Hanson, M. A., Stevens, R. C. (2012). Fusion partner toolchest for the stabilization and crystallization of g protein-coupled receptors. Structure. Vol. 20 (62012/06/12), pp. 967-76.
    • Xu, F., Wu, H., Katritch, V., Han, G. W., Jacobson, K. A., Gao, Z. G., Cherezov, V., Stevens, R. C. (2011). Structure of an Agonist-Bound Human A2A Adenosine Receptor. Science. Vol. 332 (60272011/03/12), pp. 322-327.
    • West, G. M., Chien, E. Y., Katritch, V., Gatchalian, J., Chalmers, M. J., Stevens, R. C., Griffin, P. R. (2011). Ligand-Dependent Perturbation of the Conformational Ensemble for the GPCR beta(2) Adrenergic Receptor Revealed by HDX. Structure. Vol. 19 (102011/09/06), pp. 1424-32.
    • Tiefenbrunn, T., Liu, W., Chen, Y., Katritch, V., Stout, C. D., Fee, J. A., Cherezov, V. (2011). High resolution structure of the ba3 cytochrome c oxidase from Thermus thermophilus in a lipidic environment. PLoS One. Vol. 6 (72011/08/05), pp. e22348.
    • Shimamura, T., Shiroishi, M., Weyand, S., Tsujimoto, H., Winter, G., Katritch, V., Abagyan, R., Cherezov, V., Liu, W., Han, G. W., Kobayashi, T., Stevens, R. C., Iwata, S. (2011). Structure of the human histamine H1 receptor complex with doxepin. Nature. Vol. 475 (73542011/06/24), pp. 65-70.
    • Kufareva, I., Rueda, M., Katritch, V., Stevens, R. C., Abagyan, R. (2011). Status of GPCR Modeling and Docking as Reflected by Community-wide GPCR Dock 2010 Assessment. Structure. Vol. 19 (82011/08/11), pp. 1108-26.
    • Katritch, V., Kufareva, I., Abagyan, R. (2011). Structure based prediction of subtype-selectivity for adenosine receptor antagonists. Neuropharmacology. Vol. 60 (12010/07/20), pp. 108-15.
    • Katritch, V., Abagyan, R. (2011). GPCR agonist binding revealed by modeling and crystallography. Trends Pharmacol Sci. Vol. 32 (112011/09/10), pp. 637-43.
    • de Graaf, C., Kooistra, A. J., Vischer, H. F., Katritch, V., Kuijer, M., Shiroishi, M., Iwata, S., Shimamura, T., Stevens, R. C., de Esch, I. J., Leurs, R. (2011). Crystal structure-based virtual screening for fragment-like ligands of the human histamine H(1) receptor. J Med Chem. Vol. 54 (232011/10/20), pp. 8195-206.
    • Wu, B., Chien, E. Y., Mol, C. D., Fenalti, G., Liu, W., Katritch, V., Abagyan, R., Brooun, A., Wells, P., Bi, F. C., Hamel, D. J., Kuhn, P., Handel, T. M., Cherezov, V., Stevens, R. C. (2010). Structures of the CXCR4 chemokine GPCR with small-molecule and cyclic peptide antagonists. Science. Vol. 330 (60072010/10/12), pp. 1066-71.
    • Wacker, D., Fenalti, G., Brown, M. A., Katritch, V., Abagyan, R., Cherezov, V., Stevens, R. C. (2010). Conserved binding mode of human beta2 adrenergic receptor inverse agonists and antagonist revealed by X-ray crystallography. J Am Chem Soc. Vol. 132 (332010/07/31), pp. 11443-5.
    • Rueda, M., Katritch, V., Raush, E., Abagyan, R. (2010). SimiCon: a web tool for protein-ligand model comparison through calculation of equivalent atomic contacts. Bioinformatics. Vol. 26 (212010/09/28), pp. 2784-5.
    • Katritch, V., Rueda, M., Lam, P. C., Yeager, M., Abagyan, R. (2010). GPCR 3D homology models for ligand screening: lessons learned from blind predictions of adenosine A2a receptor complex. Proteins. Vol. 78 (12010/01/12), pp. 197-211.
    • Katritch, V., Jaakola, V. P., Lane, J. R., Lin, J., Ijzerman, A. P., Yeager, M., Kufareva, I., Stevens, R. C., Abagyan, R. (2010). Structure-based discovery of novel chemotypes for adenosine A(2A) receptor antagonists. J Med Chem. Vol. 53 (42010/01/26), pp. 1799-809.
    • Jaakola, V. P., Lane, J. R., Lin, J. Y., Katritch, V., Ijzerman, A. P., Stevens, R. C. (2010). Ligand binding and subtype selectivity of the human A(2A) adenosine receptor: identification and characterization of essential amino acid residues. J Biol Chem. Vol. 285 (172010/02/12), pp. 13032-44.
    • Chien, E. Y., Liu, W., Zhao, Q., Katritch, V., Han, G. W., Hanson, M. A., Shi, L., Newman, A. H., Javitch, J. A., Cherezov, V., Stevens, R. C. (2010). Structure of the human dopamine D3 receptor in complex with a D2/D3 selective antagonist. Science. Vol. 330 (60072010/11/26), pp. 1091-5.
    • Reynolds, K. A., Katritch, V., Abagyan, R. (2009). Identifying conformational changes of the beta(2) adrenoceptor that enable accurate prediction of ligand/receptor interactions and screening for GPCR modulators. J Comput Aided Mol Des. Vol. 23 (52009/01/17), pp. 273-88.
    • Katritch, V., Reynolds, K. A., Cherezov, V., Hanson, M. A., Roth, C. B., Yeager, M., Abagyan, R. (2009). Analysis of full and partial agonists binding to beta2-adrenergic receptor suggests a role of transmembrane helix V in agonist-specific conformational changes. J Mol Recognit. Vol. 22 (42009/04/09), pp. 307-18.
    • Cherezov, V., Liu, W., Derrick, J. P., Luan, B., Aksimentiev, A., Katritch, V., Caffrey, M. (2008). In meso crystal structure and docking simulations suggest an alternative proteoglycan binding site in the OpcA outer membrane adhesin. Proteins. Vol. 71 (12007/12/14), pp. 24-34.
    • Katritch, V., Byrd, C. M., Tseitin, V., Dai, D., Raush, E., Totrov, M., Abagyan, R., Jordan, R., Hruby, D. E. (2007). Discovery of small molecule inhibitors of ubiquitin-like poxvirus proteinase I7L using homology modeling and covalent docking approaches. J Comput Aided Mol Des. Vol. 21 (10-112007/10/26), pp. 549-58.
    • Katritch, V., Totrov, M., Abagyan, R. (2003). ICFF: a new method to incorporate implicit flexibility into an internal coordinate force field. J Comput Chem. Vol. 24 (22002/12/24), pp. 254-65.

    Other
    • Reynolds, K., Abagyan, R., Katritch, V. (2010). Structure and Modeling of GPCRs: Implications for Drug Discovery. GPCR Molecular Pharmacology and Drug Targeting: Shifting Paradigms and New Directions/Wiley & Sons, Inc.





  • Department of Biological Sciences
  • University of Southern California
  • Allan Hancock Foundation Building
  • Los Angeles, CA 90089-0371