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Our Science – Tropea Website

Joseph E. Tropea, Ph.D.

Selected Publications

1)  Shaw GX, Li Y, Shi G, Wu Y, Cherry S, Needle D, Zhang D, Tropea JE, Waugh DS, Yan H, Ji X.
Structural enzymology and inhibition of the bifunctional folate pathway enzyme HPPK-DHPS from the biowarfare agent Francisella tularensis.
FEBS J. [Epub ahead of print], 2014.
[Journal]
2)  Bhaumik P, Davis J, Tropea JE, Cherry S, Johnson PF, Miller M.
Structural insights into interactions of C/EBP transcriptional activators with the Taz2 domain of p300.
Acta Crystallogr. D Biol. Crystallogr. 70: 1914-21, 2014.
[Journal]
3)  Hogan M, Bahta M, Cherry S, Lountos GT, Tropea JE, Zhao BM, Burke TR, Waugh DS, Ulrich RG.
Biomolecular Interactions of small-molecule inhibitors affecting the YopH protein tyrosine phosphatase.
Chem Biol Drug Des. 81: 323-33, 2013.
[Journal]
4)  Raran-Kurussi S, Tözsér J, Cherry S, Tropea JE, Waugh DS.
Differential temperature dependence of tobacco etch virus and rhinovirus 3C proteases.
Anal. Biochem. 436: 142-4, 2013.
[Journal]
5)  Court DL, Gan J, Liang YH, Shaw GX, Tropea JE, Costantino N, Waugh DS, Ji X.
RNase III: Genetics and function; structure and mechanism.
Annu. Rev. Genet. 47: 405-31, 2013.
[Journal]
6)  Lountos GT, Tropea JE, Waugh DS.
Structure of the Trypanosoma cruzi protein tyrosine phosphatase TcPTP1, a potential therapeutic target for Chagas" disease.
Mol. Biochem. Parasitol. 187: 1-8, 2013.
[Journal]
7)  Lountos GT, Tropea JE, Waugh DS.
Structure of the cytoplasmic domain of Yersinia pestis YscD, an essential component of the type III secretion system.
Acta Crystallogr. D Biol. Crystallogr. 68: 201-9, 2012.
[Journal]
8)  Sun P, Tropea JE, Waugh DS.
Enhancing the solubility of recombinant proteins in Escherichia coli by using hexahistidine-tagged maltose-binding protein as a fusion partner.
Methods Mol. Biol. 705: 259-74, 2011.
[Journal]
9)  Lountos GT, Jobson AG, Tropea JE, Self CR, Zhang G, Pommier Y, Shoemaker RH, Waugh DS.
Structural characterization of inhibitor complexes with checkpoint kinase 2 (Chk2), a drug target for cancer therapy.
J. Struct. Biol. 176: 292-301, 2011.
[Journal]
10)  Lountos GT, Tropea JE, Waugh DS.
Structure of human dual-specificity phosphatase 27 at 2.38 angstrom resolution.
Acta Crystallogr. D Biol. Crystallogr. 67: 471-9, 2011.
[Journal]
11)  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]
12)  Austin BP, Tözsér J, Bagossi P, 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]
13)  Lountos GT, Jobson AG, Tropea JE, Self CR, Zhang G, Pommier Y, Shoemaker RH, Waugh DS.
X-ray structures of checkpoint kinase 2 in complex with inhibitors that target its gatekeeper-dependent hydrophobic pocket.
FEBS Lett. 585: 3245-9, 2011.
[Journal]
14)  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, 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.
[Journal]
15)  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]
16)  Tropea JE, Cherry S, Waugh DS.
Expression and purification of soluble His(6)-tagged TEV protease.
Methods Mol. Biol. 498: 297-307, 2009.
[Journal]
17)  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: 1013-20, 2009.
[Journal]
18)  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]
19)  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]
20)  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]
21)  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: 1301-8, 2009.
[Journal]
22)  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]
23)  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, 2008.
[Journal]
24)  Davis J, Wang J, Tropea JE, Zhang D, Dauter Z, Waugh DS, Wlodawer A.
Novel fold of VirA, a type III secretion system effector protein from Shigella flexneri.
Protein Sci. 17: 2167-73, 2008.
[Journal]
25)  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]
26)  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 protein affinity tag.
Methods Mol. Biol. 363: 1-19, 2007.
[Journal]
27)  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]
28)  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]
29)  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 interaction with H-NS.
Biochemistry. 46: 13975-82, 2007.
[Journal]
30)  Saikh KU, Kissner TL, Dyas B, Tropea JE, Waugh DS, Ulrich RG.
Human cytolytic T cell recognition of Yersinia pestis virulence proteins that target innate immune responses.
J. Infect. Dis. 194: 1753-60, 2006.
[Journal]
31)  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]
32)  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]
33)  Schubot FD, 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]
34)  Botos I, Melnikov EE, Cherry S, Kozlov S, Makhovskaya OV, Tropea JE, Gustchina A, Rotanova TV, Wlodawer A.
Atomic-resolution crystal structure of the proteolytic domain of Archaeoglobus fulgidus lon reveals the conformational variability in the active sites of lon proteases.
J. Mol. Biol. 351: 144-57, 2005.
[Journal]
35)  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]
36)  Schubot 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]
37)  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]
38)  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]
39)  Botos I, Melnikov EE, Cherry S, Khalatova AG, Rasulova FS, 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]
40)  Nallamsetty S, Kapust RB, Tözsér 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]
41)  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]
42)  Swietnicki W, O'Brien S, Holman K, Cherry S, Brueggemann E, Tropea JE, Hines HB, Waugh DS, Ulrich RG.
Novel protein-protein interactions of the Yersinia pestis type III secretion system elucidated with a matrix analysis by surface plasmon resonance and mass spectrometry.
J. Biol. Chem. 279: 38693-700, 2004.
[Journal]
43)  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]
44)  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]
45)  Zhdanov AS, Phan J, Evdokimov AG, Tropea JE, Kapust RB, Li M, Wlodawer A, Waugh DS.
[Tobacco etch virus proteinase: crystal structure of the active enzyme and its inactive mutant].
Bioorg. Khim. 29: 457-60, 2003.
[Journal]
46)  Phan J, Lee K, Cherry S, Tropea JE, Burke TR, 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]
47)  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]
48)  Evdokimov AG, Tropea JE, Routzahn KM, Waugh DS.
Crystal structure of the Yersinia pestis GTPase activator YopE.
Protein Sci. 11: 401-8, 2002.
[Journal]
49)  Phan J, Zdanov A, Evdokimov AG, Tropea JE, Peters HK, 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]
50)  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]
51)  Blaszczyk J, Tropea JE, Bubunenko M, Routzahn KM, Waugh DS, Court DL, Ji X.
Crystallographic and modeling studies of RNase III suggest a mechanism for double-stranded RNA cleavage.
Structure. 9: 1225-36, 2001.
[Journal]
52)  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]
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This page was last updated on 7/22/2014.