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Structural Biophysics Laboratory (SBL)
Biophysics Resource

The following are publications and patents resulting from the use of the Biophysics Resource from 2000 to date:



Tanigawa S, Wang H, Yang Y, Sharma N, Tarasova N, Ajima R, Yamaguchi TP, Rodriguez LG, Perantoni AO. Wnt4 induces nephronic tubules in metanephric mesenchyme by a non-canonical mechanism. Dev. Biol. 352: 58-69. 2011. [Journal]

Datta SA, Heinrich F, Raghunandan S, Krueger S, Curtis JE, Rein A, Nanda H. HIV-1 Gag extension: conformational changes require simultaneous interaction with membrane and nucleic acid. J. Mol. Biol. 406: 205-14, 2011. [Journal]

Siddhartha AK, Datta SA, Temeselew LG, Crist RM, Soheilian F, Kamata A, Mirro J, Harvin D, Nagashima K, Cachau RE, Rein A. On the role of the SP1 domain in HIV-1 particle assembly: a molecular switch? J. Virol. 85(9): 4111-21, 2011 [Journal]

Johannessen L, Remsberg J, Gaponenko V, Adams KM, Barchi JJ Jr, Tarasov SG, Jiang S, Tarasova NI. Peptide structure stabilization by membrane anchoring and its general applicability to the development of potent cell-permeable inhibitors. Chembiochem. 12: 914-21, 2011. [Journal]

Austin BP, Tözsér J, Bagossi JP, Tropea JE, Waugh DS. The substrate specificity of Metarhizium anisopliae and Bos taurus carboxypeptidases A: insights into their use as tools for the removal of affinity tags. Protein Expr. Purif. 77: 53-61, 2011. [Journal]

Stagno JR, Altieri AS, Bubunenko M, Tarasov SG, Li J, Court DL, Byrd RA, Ji X. Structural basis for RNA recognition by NusB and NusE in the initiation of transcription antitermination. Nucleic acids research. 2011. PMID:21652641 [Journal]

Tu C, Zhou X, Tarasov SG, Tropea JE, Austin BP, Waugh DS, Court DL, Ji X. The Era GTPase recognizes the GAUCACCUCC sequence and binds helix 45 near the 3' end of 16S rRNA. Proc. Natl. Acad. Sci. U.S.A. 108: 10156-61, 2011. [Journal]

Tarasov SG, Gaponenko V, Howard OM, Chen Y, Oppenheim JJ, Dyba MA, Subramaniam S, Lee Y, Michejda C, Tarasova NI. Structural plasticity of a transmembrane peptide allows self-assembly into biologically active nanoparticles. Proc. Natl. Acad. Sci. U.S.A. 108: 9798-803, 2011. [Journal]

George T. Lountos, Joseph E. Tropea and David S. Waugh Structure of human dual-specificity phosphatase 27 at 2.38 Å resolution Acta Cryst. (2011). D67, 471-479

Medhanit Bahta, George T. Lountos, Beverly Dyas, Sung-Eun Kim, Robert G. Ulrich, David S. Waugh, and Terrence R. Burke, Jr. Utilization of Nitrophenylphosphates and Oxime-Based Ligation for the Development of Nanomolar Affinity Inhibitors of the Yersinia pestis Outer Protein H (YopH) Phosphatase J. Med. Chem., 2011, 54 (8), pp 2933–2943 DOI: 10.1021/jm200022g Publication Date (Web): March 28, 2011

Sung-Eun Kim, Medhanit Bahta , George T. Lountos , Robert G. Ulrich, Terrence R. Burke Jr and David S. Waugh. Isothiazolidinone (IZD) as a phosphoryl mimetic in inhibitors of the Yersinia pestis protein tyrosine phosphatase YopH Acta Crystallogr D Biol Crystallogr. 2011 Jul;67(Pt 7):639-45. Epub 2011 Jun 11


Wang H, Yang Y, Sharma N, Tarasova NI, Timofeeva OA, Winkler-Pickett RT, Tanigawa S, Perantoni AO. STAT1 activation regulates proliferation and differentiation of renal progenitors. Cell Signal. 22: 1717-26, 2010. [Journal]

Li C, Pazgier M, Li J, Li C, Liu M, Zou G, Li Z, Chen J, Tarasov SG, Lu WY, Lu W. Limitations of peptide retro-inverso isomerization in molecular mimicry. J. Biol. Chem. 285: 19572-81, 2010. [Journal]

Muus U, Hose C, Yao W, Kosakowska-Cholody T, Farnsworth D, Dyba M, Lountos GT, Waugh DS, Monks A, Burke TR Jr, Michejda CJ. Development of antiproliferative phenylmaleimides that activate the unfolded protein response. Bioorg. Med. Chem. 18: 4535-41, 2010. [Journal]

Oladeinde OA, Hong SY, Holland RJ, Maciag AE, Keefer LK, Saavedra JE, Nandurdikar RS. "Click" reaction in conjunction with diazeniumdiolate chemistry: developing high-load nitric oxide donors. Org. Lett. 12: 4256-9, 2010. [Journal]

Bokesch HR, Cartner LK, Fuller RW, Wilson JA, Henrich CJ, Kelley JA, Gustafson KR, McMahon JB, McKee TC. Inhibition of ABCG2-mediated drug efflux by naphthopyrones from marine crinoids. Bioorg. Med. Chem. Lett. 20: 3848-50, 2010. [Journal]

Subburaman P, Austin BP, Shaw GX, Waugh DS, Xinhua J. Cloning, expression, purification, crystallization and preliminary X-ray diffraction analysis of macrophage growth locus A (MglA) protein from Francisella tularensis Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun. 66: 554-7, 2010. [Journal]

Polgar O, Ierano C, Tamaki A, Stanley B, Ward Y, Xia D, Tarasova N, Robey RW, Bates SE. Mutational analysis of threonine 402 adjacent to the GXXXG dimerization motif in transmembrane segment 1 of ABCG2. Biochemistry. 49: 2235-45, 2010. [Journal]


Pazgier M, Liu M, Zou G, Yuan W, Li C, Li C, Li J, Monbo J, Zella D, Tarasov SG, Lu W. Structural basis for high-affinity peptide inhibition of p53 interactions with MDM2 and MDMX. Proc. Natl. Acad. Sci. U.S.A. 106: 4665-70, 2009. [Journal]

Gong R, Vu BK, Feng Y, Prieto DA, Dyba MA, Walsh JD, Prabakaran P, Veenstra TD, Tarasov SG, Ishima R, Dimitrov DS. Engineered human antibody constant domains with increased stability. J. Biol. Chem. Mar 2009 [Epub ahead of print]. [Journal]

Ratnayake R, Covell D, Ransom TT, Gustafson KR, Beutler JA .  Englerin A, a selective inhibitor of renal cancer cell growth, from Phyllanthus engleri. Org. Lett. 11: 57-60, 2009. [Journal]

Lountos GT, Tropea JE, Zhang D, Jobson AG, Pommier Y, Shoemaker RH, Waugh DS. Crystal structure of checkpoint kinase 2 in complex with NSC 109555, a potent and selective inhibitor. Protein Sci. 18: 92-100, 2009. [Journal]

Lountos GT, Austin BP, Nallamsetty S, Waugh DS. Atomic resolution structure of the cytoplasmic domain of Yersinia pestis YscU, a regulatory switch involved in type III secretion. Protein Sci. 18: 467-74, 2009. [Journal]

Das R, Mariano J, Tsai YC, Kalathur RC, Kostova Z, Li J, Tarasov SG, McFeeters RL, Altieri AS, Ji X, Byrd RA, Weissman AM. Allosteric activation of E2-RING finger-mediated ubiquitylation by a structurally defined specific E2-binding region of gp78. Mol Cell. 34: 674-85, 2009. [Journal]

Wang J, Zuo X, Yu P, Byeon IJ, Jung J, Wang X, Dyba M, Seifert S, Schwieters CD, Qin J, Gronenborn AM, Wang YX. Determination of multicomponent protein structures in solution using global orientation and shape restraints. J. Am. Chem. Soc. 131: 10507-15, 2009. [Journal]

Lountos GT, Tropea JE, Cherry S, Waugh DS. Overproduction, purification and structure determination of human dual-specificity phosphatase 14. Acta Crystallogr D Biol Crystallogr. 65(Pt 10): 1013-20, 2009. [Journal]

Acchione M, Lipschultz CA, DeSantis ME, Shanmuganathan A, Li M, Wlodawer A, Tarasov S, Smith-Gill SJ. Light chain somatic mutations change thermodynamics of binding and water coordination in the HyHEL-10 family of antibodies. Mol. Immunol. 47(2-3): 457-64, 2009. [Journal]

Yavlovich A, Singh A, Tarasov S, Capala J, Blumenthal R, Puri A. Design of liposomes containing photopolymerizable phospholipids for triggered release of contents. J. Therm. Anal. Calorim. 98: 97-104, 2009. [Journal]

Miller M, Dauter Z, Cherry S, Tropea JE, Wlodawer A. Structure of the Taz2 domain of p300: insights into ligand binding. Acta Crystallogr D Biol Crystallogr. 65(Pt 12): 1301-8, 2009. [Journal]

Jobson AG, Lountos GT, Lorenzi PL, Llamas J, Connelly J, Cerna D, Tropea JE, Onda A, Zoppoli G, Kondapaka S, Zhang G, Caplen NJ, Cardellina JH 2nd, Yoo SS, Monks A, Self C, Waugh DS, Shoemaker RH, Pommier Y. Cellular inhibition of checkpoint kinase 2 (Chk2) and potentiation of camptothecins and radiation by the novel Chk2 inhibitor PV1019 [7-nitro-1H-indole-2-carboxylic acid {4-[1-(guanidinohydrazone)-ethyl]-phenyl}-amide]. J Pharmacol Exp Ther. 331: 816-26, 2009.

Tu C, Zhou X, Tropea JE, Austin BP, Waugh DS, Court DL, Ji X. Structure of ERA in complex with the 3' end of 16S rRNA: implications for ribosome biogenesis. Proc Natl Acad Sci U S A. 106: 14843-8, 2009. [Journal]

Tu C, Tropea JE, Austin BP, Court DL, Waugh DS, Ji X. Structural basis for binding of RNA and cofactor by a KsgA methyltransferase. Structure. 17: 374-85, 2009. [Journal]

Feng H, Jenkins LM, Durell SR, Hayashi R, Mazur SJ, Cherry S, Tropea JE, Miller M, Wlodawer A, Appella E, Bai Y. Structural basis for p300 Taz2-p53 TAD1 binding and modulation by phosphorylation. Structure. 17: 202-10, 2009. [Journal]

Jenkins LM, Yamaguchi H, Hayashi R, Cherry S, Tropea JE, Miller M, Wlodawer A, Appella E, Mazur SJ. Two distinct motifs within the p53 transactivation domain bind to the Taz2 domain of p300 and are differentially affected by phosphorylation. Biochemistry. 48: 1244-55. 2009. [Journal]


Das R, Loss S, Li J, Waugh DS, Tarasov S, Wingfield P, Byrd RA, Altieri AS. Structural biophysics of the NusB:NusE antitermination complex. J. Mol. Biol. 376: 705-20, 2008. [Journal]

Sun P, Tropea JE, Austin BP, Cherry S, Waugh DS. Structural characterization of the Yersinia pestis type III secretion system needle protein YscF in complex with its heterodimeric chaperone YscE/YscG. J. Mol. Biol. 377: 819-30, 2008. [Journal]

Li M, Gustchina A, Alexandratos J, Wlodawer A, Wunschmann S, Kepley CL, Chapman MD, Pomes A. Crystal structure of a dimerized cockroach allergen Bla g 2 complexed with a monoclonal antibody, . 283: 22806-14, 2008. [Journal]

Kaczmarek P, Keay SK, Tocci GM, Koch KR, Zhang CO, Barchi JJ Jr, Grkovic D, Guo L, Michejda CJ. Structure-activity relationship studies for the peptide portion of the bladder epithelial cell antiproliferative factor from interstitial cystitis patients J. Med. Chem. 5: 5974-83, 2008 [Journal]


Datta SA, Zhao Z, Clark PK, Tarasov S, Alexandratos JN, Campbell SJ, Kvaratskhelia M, Lebowitz J, Rein A. Interactions between HIV-1 Gag molecules in solution: an inositol phosphate-mediated switch. J. Mol. Biol. 365: 799-811, 2007. [Journal]

Moody DL, Dyba M, Kosakowska-Cholody T, Tarasova NI, Michejda CJ. Synthesis and biological activity of 5-aza-ellipticine derivatives. Bioorg. Med. Chem. Lett. 17: 2380-4, 2007. [Journal]

Remsberg JR, Lou H, Tarasov SG, Dean M, Tarasova NI. Structural analogues of smoothened intracellular loops as potent inhibitors of Hedgehog pathway and cancer cell growth. J. Med. Chem. 50: 4534-8, 2007. [Journal]

McFeeters RL, Xiong C, O'Keefe BR, Bokesch HR, McMahon JB, Ratner DM, Castelli R, Seeberger PH, Byrd RA. The novel fold of scytovirin reveals a new twist for antiviral entry inhibitors. J. Mol. Biol. 369: 451-61, 2007. [Journal]

Nallamsetty S, Waugh DS. Mutations that alter the equilibrium between open and closed conformations of Escherichia coli maltose-binding protein impede its ability to enhance the solubility of passenger proteins. Biochem. Biophys. Res. Commun. 364: 639-44, 2007. [Journal]

Sun P, Austin BP, Schubot FD, Waugh DS. New protein fold revealed by a 1.65 A resolution crystal structure of Francisella tularensis pathogenicity island protein IglC. Protein Sci. 16: 2560-3, 2007. [Journal]

Timofeeva OA, Gaponenko V, Lockett SJ, Tarasov SG, Jiang S, Michejda CJ, Perantoni AO, Tarasova NI. Rationally designed inhibitors identify STAT3 N-domain as a promising anti-cancer drug target. ACS Chem. Biol. 2: 799-809, 2007. [Journal]

Hariprakasha HK, Kosakowska-Cholody T, Meyer C, Cholody WM, Stinson SF, Tarasova NI, Michejda CJ. Optimization of naphthalimide-imidazoacridone with potent antitumor activity leading to clinical candidate (HKH40A, RTA 502). J. Med. Chem. 50: 5557-60, 2007. [Journal]

Rao RP, Yuan C, Allegood JC, Rawat SS, Edwards MB, Wang X, Merrill AH Jr, Acharya U, Acharya JK. Ceramide transfer protein function is essential for normal oxidative stress response and lifespan. Proc. Natl. Acad. Sci. U. S. A. 104: 11364-9, 2007. [Journal]

Tropea JE, Cherry S, Nallamsetty S, Bignon C, Waugh DS. A generic method for the production of recombinant proteins in Escherichia coli using a dual hexahistidine-maltose-binding affinity tag. Methods Mol. Biol. 363: 1-19, 2007. [Journal]

Phan J, Tropea JE, Waugh DS. Structure-assisted discovery of Variola major H1 phosphatase inhibitors. Acta Crystallogr. D Biol. Crystallogr. 63: 698-704, 2007. [Journal]

McFeeters RL, Altieri AS, Cherry S, Tropea JE, Waugh DS, Byrd RA. The high-precision solution structure of Yersinia modulating protein YmoA provides insight into interactions with H-NS.  Biochemistry 4 6: 13975-82, 2007. [Journal]

Blaszczyk J, Li Y, Cherry S, Alexandratos J, Wu Y, Shaw G, Tropea JE, Waugh DS, Yan H, Ji X. Structure and activity of Yersinia pestis 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase as a novel target for the development of antiplague therapeutics.  Acta Crystallogr D Biol Crystallogr. 63: 1169-77, 2007. [Journal]

Gan J, Shaw G, Tropea JE, Waugh DS, Court DL, Ji X. A stepwise model for double-stranded RNA processing by ribonuclease III. Mol Microbiol. 67: 143-54, 2007. [Journal]


Gan J, Tropea JE, Austin BP, Court DL, Waugh DS, Ji X. Structural insight into the mechanism of double-stranded RNA processing by ribonuclease III. Cell 124: 355-66, 2006. [Journal]

Waterhouse DJ, Saavedra JE, Davies KM, Citro ML, Xu X, Powell DA, Grimes GJ, Potti GK, Keefer LK. Injectable formulation of disodium 1-[2-(carboxylato)pyrrolidin-1-yl]diazen-1-ium-1,2-diolate (PROLI/NO), an ultrafast nitric oxide donor prodrug. J Pharm Sci. 95: 108-15, 2006. [Journal]

Dash C, Marino JP, Le Grice SF. Examining Ty3 polypurine tract structure and function by nucleoside analog interference. J Biol Chem. 281: 2773-83, 2006. [Journal]

Tropea JE, Phan J, Waugh, DS. Overproduction, purification, and biochemical characterization of the dual specificity H1 protein phosphatase encoded by variola major virus. Protein Expr. Purif. 50: 31-6, 2006. [Journal]

Schubot FD, Joseph E. Tropea JE, Waugh, DS. Structure of the POZ domain of human LRF, a master regulator of oncogenesis. Biochem. Biophys. Res. Commun. 351: 1-6, 2006. [Journal]


Tarasova NI, Seth R, Tarasov SG, Kosakowska-Cholody T, Hrycyna CA, Gottesman MM, Michejda CJ. Transmembrane inhibitors of P-glycoprotein, an ABC transporter. J. Med. Chem. 48: 3768-75, 2005. [Journal]

Florian FD, Cherry S, Austin BP, Tropea JE, Waugh DS. Crystal structure of the protease-resistant core domain of Yersinia pestis virulence factor YopR. Protein Sci. 14: 1679-83, 2005. [Journal]

Schubot FD, Jackson MW, Penrose KJ, Cherry S, Tropea JE, Plano GV, Waugh DS. Three-dimensional structure of a macromolecular assembly that regulates type III secretion in Yersinia pestis, J. Mol. Biol. 346: 1147-61, 2005. [Journal]

Tözsér J, Tropea JE, Cherry S, Bagossi P, Copeland TD, Wlodawer A, Waugh DS. Comparison of the substrate specificity of two potyvirus proteases. FEBS J. 272: 514-23, 2005. [Journal]

Phan J, Austin BP, Waugh DS. Crystal structure of the Yersinia type III secretion protein YscE. Protein Sci. 14: 2759-63, 2005. [Journal]

Gan J, Tropea JE, Austin BP, Court DL, Waugh DS, Ji X. Intermediate states of ribonuclease III in complex with double-stranded RNA, Structure 13: 1435-42, 2005. [Journal]

Phan J, Shi ZD, Burke TR Jr, Waugh DS. Crystal structures of a high-affinity macrocyclic peptide mimetic in complex with the Grb2 SH2 domain, J. Mol. Biol. 353: 104-15, 2005. [Journal]

Cholody WM, Kosakowska-Cholody T, Hollingshead MG, Hariprakasha HK, Michejda CJ. A new synthetic agent with potent but selective cytotoxic activity against cancer. J. Med. Chem. 48: 4474-81, 2005. [Journal]


Yu P, Neamati N, Tarasov S, He Q, Sheikh MS, Wang YX. Codon-optimized cloning, expression and characterization of the C-terminal region of human apoptotic protein GADD34 in Escherichia coli. Cell Cycle 3: 75-9, 2004. [Journal]

Botos I, Melnikov EE, Cherry S, Khalatova AG, Rasulova F, Tropea JE, Maurizi MR, Rotanova TV, Gustchina A, Wlodawer A. Crystal structure of the AAA+ alpha domain of E. coli Lon protease at 1.9A resolution. J. Struct. Biol. 146: 113-22, 2004. [Journal]

Blaszczyk J, Gan J, Tropea JE, Court DL, Waugh DS, Ji X. Noncatalytic assembly of ribonuclease III with double-stranded RNA. Structure 12: 457-66, 2004. [Journal]

Gaponenko V, Sarma SP, Altieri AS, Horita DA, Li J, Byrd RA. Improving the accuracy of NMR structures of large proteins using pseudocontact shifts as long-range restraints. J. Biomol. NMR 28: 205-12, 2004. [Journal]

Botos I, Melnikov EE, Cherry S, Tropea JE, Khalatova AG, Rasulova F, Dauter, Z, Maurizi MR, Rotanova TV, Wlodawer A, Gustchina A. The catalytic domain of Escherichia coli Lon protease has a unique fold and a Ser-Lys dyad in the active site. J. Biol. Chem. 279: 8140-8, 2004. [Journal]

Phan J, Tropea JE, Waugh DS. Structure of the Yersinia pestis type III secretion chaperone SycH in complex with a stable fragment of YscM2. Acta Crystallogr. D Biol. Crystallogr. 60: 1591-9, 2004. [Journal]

Keay SK, Szekely Z, Conrads TP, Veenstra TD, Barchi JJ Jr, Zhang CO, Koch KR, Michejda CJ. An antiproliferative factor from interstitial cystitis patients is a frizzled 8 protein-related sialoglycopeptide. Proc. Natl. Acad. Sci. U S A 101: 11803-8, 2004. [Journal]

Nallamsetty S, Kapust RB, Tozser J, Cherry S, Tropea JE, Copeland TD, Waugh DS. Efficient site-specific processing of fusion proteins by tobacco vein mottling virus protease in vivo and in vitro. Protein Expr. Purif. 38: 108-15, 2004. [Journal]

Schubot FD, Waugh DS. A pivotal role for reductive methylation in the de novo crystallization of a ternary complex composed of Yersinia pestis virulence factors YopN, SycN and YscB. Acta Crystallogr. D Biol. Crystallogr. 60: 1981-6, 2004. [Journal]

Dash C, Yi-Brunozzi HY, Le Grice SF. Two modes of HIV-1 polypurine tract cleavage are affected by introducing locked nucleic acid analogs into the (-) DNA template. J. Biol. Chem. 279: 37095-102, 2004. [Journal]

Moody TW, Czerwinski G, Tarasova NI, Moody DL, Michejda CJ. The development of VIP-ellipticine conjugates. Regul. Pept. 123: 187-92, 2004. [Journal]


González-Sapienza G, Cachau RE. Identification of critical residues of an immunodominant region of Echinococcus granulosus antigen B. J. Biol. Chem. 278: 20179-84, 2003. [Journal]

Lener D, Kvaratskhelia M, Le Grice SF. Non-polar thymine isosteres in the Ty3 polypurine tract DNA template modulate processing and provide a model for its recognition by Ty3 reverse transcriptase. J. Biol. Chem. 278: 26526-32, 2003. [Journal]

Tozser J, Bagossi P, Zahuczky G, Specht SI, Majerova E, Copland TD. Effect of caspase cleavage-site phosphorylation on proteolysis. Biochem. J. 372: 137-43, 2003. [Journal]

Evdokimov AG, Phan J, Tropea JE, Routzahn KM, Peters HK, Pokross M, Waugh DS. Similar modes of polypeptide recognition by export chaperones in flagellar biosynthesis and type III secretion. Nat. Struct. Biol. 10: 789-93, 2003. [Journal]

Tarasov SG, Casas-Finet JR, Cholody WM, Kosakowska-Cholody T, Gryczynski ZK, Michejda CJ. Bisimidazoacridones: 2. Steady-state and time-resolved fluorescence studies of their diverse interactions with DNA. Photochem. Photobiol. 78: 313-22, 2003. [Journal]

Phan J, Lee K, Cherry S, Tropea JE, Burke TR Jr, Waugh DS. High-resolution structure of the Yersinia pestis protein tyrosine phosphatase YopH in complex with a phosphotyrosyl mimetic-containing hexapeptide. Biochemistry 42: 13113-21, 2003. [Journal]


Zhou M, Horita DA, Waugh DS, Byrd RA, Morrison DK. Solution structure and functional analysis of the cysteine-rich C1 domain of kinase suppressor of Ras (KSR). J. Mol. Biol. 315: 435-46, 2002. [Journal]

Waters NC, Kopydlowski KM, Guszczynski T, Wei ., Sellers, P, Ferlan JT, Lee PJ, Li Z, Woodard CL, Shallom S, Gardner MJ, Prigge ST. Functional characterization of the acyl carrier protein (PfACP) and beta-ketoacyl ACP synthase III (PfKASIII) from Plasmodium falciparum. Mol. Biochem. Parasitol. 123: 85-94, 2002. [Journal]

Evdokimov AG, Tropea JE, Routzahn KM, Waugh DS. Three-dimensional structure of the type III secretion chaperone SycE from Yersinia pestis. Acta Crystallogr. D Biol. Crystallogr. 58: 398-406, 2002. [Journal]

Evdokimov AG, Tropea JE, Routzahn KM, Waugh DS. Crystal structure of the Yersinia pestis GTPase activator YopE. Protein Sci 11: 401-8, 2002. [Journal]

Gaponenko V, Altieri AS, Li J, Byrd RA. Breaking symmetry in the structure determination of (large) symmetric protein dimers. J. Biomol. NMR. 24: 143-8, 2002. [Journal]

Phan J, Zdanov A, Evdokimov AG, Tropea JE, Peters HK III, Kapust RB, Li M, Wlodawer A, Waugh DS. Structural basis for the substrate specificity of tobacco etch virus protease. J. Biol. Chem. 277: 50564-72, 2002. [Journal]

Hofmann A, Tarasov S, Grella M, Ruvinov S, Nasr F, Filipowicz W, Wlodawer A. Biophysical characterization of cyclic nucleotide phosphodiesterases. Biochem. Biophys. Res. Commun. 291: 875-83, 2002. [Journal]

Moody TW, Czerwinski G, Tarasova NI, Michejda CJ. VIP-ellipticine derivatives inhibit the growth of breast cancer cells. Life Sci. 71: 1005-14, 2002. [Journal]


Kapust RB, Tozser J, Fox JD, Anderson DE, Cherry S, Copeland TD, Waugh DS. Tobacco etch virus protease: mechanism of autolysis and rational design of stable mutants with wild-type catalytic proficiency. Protein Eng. 14: 993-1000, 2001. [Journal]

Evdokimov AG, Anderson DE, Routzahn KM, Waugh DS. Structural basis for oligosaccharide recognition by Pyrococcus furiosus maltodextrin-binding protein. J. Mol. Biol. 305: 891-904, 2001. [Journal]

Evdokimov AG, Tropea JE, Routzahn KM, Copeland TD, Waugh DS. Structure of the N-terminal domain of Yersinia pestis YopH at 2.0 A resolution. Acta Crystallogr. D Biol. Crystallogr. 57: 793-9, 2001. [Journal]

Blaszczyk J, Tropea JE, Bubunenko M, Routzahn KM, Waugh DS, Court DL, Ji X. Crystallographic and modeling studies of RNase III suggests a mechanism for double-stranded RNA cleavage. Structure 9: 1225-36, 2001. [Journal]

Eisenmesser EZ, Horita DA, Byrd RA. Secondary structure and backbone resonance assignments for human interleukin-13. J. Biomol. NMR 19: 93-4, 2001. [Journal]

Eisenmesser EZ, Horita DA, Altieri AS, Byrd RA. Solution structure of interleukin-13 and insights into receptor engagement. J. Mol. Biol. 310: 231-41, 2001. [Journal]

Cholody WM, Kosakowska-Cholody T, Michejda CJ. Bisimidazoacridones induce a potent cytostatic effect in colon tumor cells that sensitizes them to killing by UCN-01.  Cancer Chemother. Pharmacol. 47: 241-9, 2001. [Journal]


Evdokimov AG, Anderson DE, Routzahn KM, Waugh DS. Overproduction, purification, crystallization and preliminary X-ray diffraction analysis of YopM, an essential virulence factor extruded by the plague bacterium Yersinia pestis. Acta Crystallogr. D Biol. Crystallogr. 56: 1676-9, 2000. [Journal]


Tarasova NI, Timofeeva O, Gaponenko V, Perantoni A, Tarasov S, Michejda CJ.  Peptide-based STAT inhibitors. US Patent:  PCT/US No. 60/940,916. 5/30/2007. [Patent]

Tarasova NI, Tarasov S, Michejda CJ.  Self-assembling nanoparticles composed of transmembrane peptides and their application for specific intra-tumor delivery of anti-cancer drugs. US Patent:  PCT/US No.60/864,665. 11/07/2006. [Patent]

Tarasova NI, Dean M, Lou H.  Smoothened polypeptides and methods of use. US Patent:  PCT/US No. 60/855,422. 10/31/2006. [Patent]

Tarasova NI, Michejda CJ, Dyba M.  Azonifide-derived tumor and cancer targeting compounds. US Patent:  PCT/US No. 60/844,027. 9/12/2006. [Patent]

Tarasova NI, Michejda CJ.  G-protein coupled receptor antagonists. US Patent:  7,105,488. Issued: 09/12/2006. [Patent]

Tarasova NI, Michejda CJ.  Novel class of G-protein-coupled receptor antagonists targeting trans-membrane domains of the receptors. Patents:  WO9943711A1 (09/02/1999), EP1056778A1 (12/06/2000), CA2321962AA (09/02/1999), AU760208 (accepted 03/05/2003). [Patent]

Tarasova NI, Michejda CJ, Dyba M, Cohran C. Conjugates of ligand linker and cytotoxic agent and related composition and methods of use. US Patent:  PCT/US No. 03/06344. 2/27/2003. [Patent]

Tarasova NI, Michejda CJ, Dyba M, Cohran C. Cytotoxic agents delivered into tumor cell through specific cell surface receptors.  US Patent:  PCT/US No. 60/360,543. April 2002. [Patent]

Tarasova NI, Michejda CJ, Hrycyna C, Gottesman M. Inhibition of ABC transporters by transmembrane domain analogs. US Patent: PCT/US No. 00/31817. 05/13/2002. [Patent]


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