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Items: 1 to 50 of 75

1.

Identification of a ligand binding hot spot and structural motifs replicating aspects of tyrosyl-DNA phosphodiesterase I (TDP1) phosphoryl recognition by crystallographic fragment cocktail screening.

Lountos GT, Zhao XZ, Kiselev E, Tropea JE, Needle D, Pommier Y, Burke TR, Waugh DS.

Nucleic Acids Res. 2019 Jun 14. pii: gkz515. doi: 10.1093/nar/gkz515. [Epub ahead of print]

PMID:
31199869
2.

The molecular mechanism of dsRNA processing by a bacterial Dicer.

Jin L, Song H, Tropea JE, Needle D, Waugh DS, Gu S, Ji X.

Nucleic Acids Res. 2019 May 21;47(9):4707-4720. doi: 10.1093/nar/gkz208.

3.

Targeting Protein-Protein Interactions of Tyrosine Phosphatases with Microarrayed Fragment Libraries Displayed on Phosphopeptide Substrate Scaffolds.

Hogan M, Bahta M, Tsuji K, Nguyen TX, Cherry S, Lountos GT, Tropea JE, Zhao BM, Zhao XZ, Waugh DS, Burke TR Jr, Ulrich RG.

ACS Comb Sci. 2019 Mar 11;21(3):158-170. doi: 10.1021/acscombsci.8b00122. Epub 2019 Jan 31.

PMID:
30629404
4.

Crystal structure of the human dual specificity phosphatase 1 catalytic domain.

Gumpena R, Lountos GT, Raran-Kurussi S, Tropea JE, Cherry S, Waugh DS.

Protein Sci. 2018 Feb;27(2):561-567. doi: 10.1002/pro.3328. Epub 2017 Nov 21.

5.

A Small-Molecule Microarray Approach for the Identification of E2 Enzyme Inhibitors in Ubiquitin-Like Conjugation Pathways.

Zlotkowski K, Hewitt WM, Sinniah RS, Tropea JE, Needle D, Lountos GT, Barchi JJ Jr, Waugh DS, Schneekloth JS Jr.

SLAS Discov. 2017 Jul;22(6):760-766. doi: 10.1177/2472555216683937. Epub 2017 Jan 6.

6.

Insights Into the Allosteric Inhibition of the SUMO E2 Enzyme Ubc9.

Hewitt WM, Lountos GT, Zlotkowski K, Dahlhauser SD, Saunders LB, Needle D, Tropea JE, Zhan C, Wei G, Ma B, Nussinov R, Waugh DS, Schneekloth JS Jr.

Angew Chem Int Ed Engl. 2016 May 4;55(19):5703-7. doi: 10.1002/anie.201511351. Epub 2016 Apr 1.

7.

Phosphotyrosine Substrate Sequence Motifs for Dual Specificity Phosphatases.

Zhao BM, Keasey SL, Tropea JE, Lountos GT, Dyas BK, Cherry S, Raran-Kurussi S, Waugh DS, Ulrich RG.

PLoS One. 2015 Aug 24;10(8):e0134984. doi: 10.1371/journal.pone.0134984. eCollection 2015.

8.

Structure of human dual-specificity phosphatase 7, a potential cancer drug target.

Lountos GT, Austin BP, Tropea JE, Waugh DS.

Acta Crystallogr F Struct Biol Commun. 2015 Jun;71(Pt 6):650-6. doi: 10.1107/S2053230X1500504X. Epub 2015 May 20.

9.

Characterization of the p300 Taz2-p53 TAD2 complex and comparison with the p300 Taz2-p53 TAD1 complex.

Miller Jenkins LM, Feng H, Durell SR, Tagad HD, Mazur SJ, Tropea JE, Bai Y, Appella E.

Biochemistry. 2015 Mar 24;54(11):2001-10. doi: 10.1021/acs.biochem.5b00044. Epub 2015 Mar 16.

PMID:
25753752
10.

Structural analysis of human dual-specificity phosphatase 22 complexed with a phosphotyrosine-like substrate.

Lountos GT, Cherry S, Tropea JE, Waugh DS.

Acta Crystallogr F Struct Biol Commun. 2015 Feb;71(Pt 2):199-205. doi: 10.1107/S2053230X15000217. Epub 2015 Jan 28.

11.

Structural insights into interactions of C/EBP transcriptional activators with the Taz2 domain of p300.

Bhaumik P, Davis J, Tropea JE, Cherry S, Johnson PF, Miller M.

Acta Crystallogr D Biol Crystallogr. 2014 Jul;70(Pt 7):1914-21. doi: 10.1107/S1399004714009262. Epub 2014 Jun 29.

12.

Structural enzymology and inhibition of the bi-functional folate pathway enzyme HPPK-DHPS from the biowarfare agent Francisella tularensis.

Shaw GX, Li Y, Shi G, Wu Y, Cherry S, Needle D, Zhang D, Tropea JE, Waugh DS, Yan H, Ji X.

FEBS J. 2014 Sep;281(18):4123-37. doi: 10.1111/febs.12896. Epub 2014 Jul 23.

13.

RNase III: Genetics and function; structure and mechanism.

Court DL, Gan J, Liang YH, Shaw GX, Tropea JE, Costantino N, Waugh DS, Ji X.

Annu Rev Genet. 2013;47:405-31. doi: 10.1146/annurev-genet-110711-155618. Review.

14.

Differential temperature dependence of tobacco etch virus and rhinovirus 3C proteases.

Raran-Kurussi S, Tözsér J, Cherry S, Tropea JE, Waugh DS.

Anal Biochem. 2013 May 15;436(2):142-4. doi: 10.1016/j.ab.2013.01.031. Epub 2013 Feb 7.

15.

Biomolecular Interactions of small-molecule inhibitors affecting the YopH protein tyrosine phosphatase.

Hogan M, Bahta M, Cherry S, Lountos GT, Tropea JE, Zhao BM, Burke TR Jr, Waugh DS, Ulrich RG.

Chem Biol Drug Des. 2013 Mar;81(3):323-33. doi: 10.1111/cbdd.12097.

16.

Structure of the Trypanosoma cruzi protein tyrosine phosphatase TcPTP1, a potential therapeutic target for Chagas' disease.

Lountos GT, Tropea JE, Waugh DS.

Mol Biochem Parasitol. 2013 Jan;187(1):1-8. doi: 10.1016/j.molbiopara.2012.10.006. Epub 2012 Nov 5.

17.

Structure of the cytoplasmic domain of Yersinia pestis YscD, an essential component of the type III secretion system.

Lountos GT, Tropea JE, Waugh DS.

Acta Crystallogr D Biol Crystallogr. 2012 Mar;68(Pt 3):201-9. doi: 10.1107/S0907444911054308. Epub 2012 Feb 7.

18.

Structural characterization of inhibitor complexes with checkpoint kinase 2 (Chk2), a drug target for cancer therapy.

Lountos GT, Jobson AG, Tropea JE, Self CR, Zhang G, Pommier Y, Shoemaker RH, Waugh DS.

J Struct Biol. 2011 Dec;176(3):292-301. doi: 10.1016/j.jsb.2011.09.008. Epub 2011 Sep 22.

19.

X-ray structures of checkpoint kinase 2 in complex with inhibitors that target its gatekeeper-dependent hydrophobic pocket.

Lountos GT, Jobson AG, Tropea JE, Self CR, Zhang G, Pommier Y, Shoemaker RH, Waugh DS.

FEBS Lett. 2011 Oct 20;585(20):3245-9. doi: 10.1016/j.febslet.2011.08.050. Epub 2011 Sep 7.

20.

The Era GTPase recognizes the GAUCACCUCC sequence and binds helix 45 near the 3' end of 16S rRNA.

Tu C, Zhou X, Tarasov SG, Tropea JE, Austin BP, Waugh DS, Court DL, Ji X.

Proc Natl Acad Sci U S A. 2011 Jun 21;108(25):10156-61. doi: 10.1073/pnas.1017679108. Epub 2011 Jun 6.

21.

Structure of human dual-specificity phosphatase 27 at 2.38 Å resolution.

Lountos GT, Tropea JE, Waugh DS.

Acta Crystallogr D Biol Crystallogr. 2011 May;67(Pt 5):471-9. doi: 10.1107/S090744491100970X. Epub 2011 Apr 16.

22.

Enhancing the solubility of recombinant proteins in Escherichia coli by using hexahistidine-tagged maltose-binding protein as a fusion partner.

Sun P, Tropea JE, Waugh DS.

Methods Mol Biol. 2011;705:259-74. doi: 10.1007/978-1-61737-967-3_16. Review.

PMID:
21125392
23.

The substrate specificity of Metarhizium anisopliae and Bos taurus carboxypeptidases A: insights into their use as tools for the removal of affinity tags.

Austin BP, Tözsér J, Bagossi P, Tropea JE, Waugh DS.

Protein Expr Purif. 2011 May;77(1):53-61. doi: 10.1016/j.pep.2010.11.005. Epub 2010 Nov 10.

24.

Structure of the Taz2 domain of p300: insights into ligand binding.

Miller M, Dauter Z, Cherry S, Tropea JE, Wlodawer A.

Acta Crystallogr D Biol Crystallogr. 2009 Dec;65(Pt 12):1301-8. doi: 10.1107/S0907444909040153. Epub 2009 Nov 17.

25.

Overproduction, purification and structure determination of human dual-specificity phosphatase 14.

Lountos GT, Tropea JE, Cherry S, Waugh DS.

Acta Crystallogr D Biol Crystallogr. 2009 Oct;65(Pt 10):1013-20. doi: 10.1107/S0907444909023762. Epub 2009 Sep 16.

26.

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].

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.

J Pharmacol Exp Ther. 2009 Dec;331(3):816-26. doi: 10.1124/jpet.109.154997. Epub 2009 Sep 9.

27.

Structure of ERA in complex with the 3' end of 16S rRNA: implications for ribosome biogenesis.

Tu C, Zhou X, Tropea JE, Austin BP, Waugh DS, Court DL, Ji X.

Proc Natl Acad Sci U S A. 2009 Sep 1;106(35):14843-8. doi: 10.1073/pnas.0904032106. Epub 2009 Aug 17.

28.

Structural basis for binding of RNA and cofactor by a KsgA methyltransferase.

Tu C, Tropea JE, Austin BP, Court DL, Waugh DS, Ji X.

Structure. 2009 Mar 11;17(3):374-85. doi: 10.1016/j.str.2009.01.010.

29.

Structural basis for p300 Taz2-p53 TAD1 binding and modulation by phosphorylation.

Feng H, Jenkins LM, Durell SR, Hayashi R, Mazur SJ, Cherry S, Tropea JE, Miller M, Wlodawer A, Appella E, Bai Y.

Structure. 2009 Feb 13;17(2):202-10. doi: 10.1016/j.str.2008.12.009.

30.

Crystal structure of checkpoint kinase 2 in complex with NSC 109555, a potent and selective inhibitor.

Lountos GT, Tropea JE, Zhang D, Jobson AG, Pommier Y, Shoemaker RH, Waugh DS.

Protein Sci. 2009 Jan;18(1):92-100. doi: 10.1002/pro.16.

31.

Two distinct motifs within the p53 transactivation domain bind to the Taz2 domain of p300 and are differentially affected by phosphorylation.

Jenkins LM, Yamaguchi H, Hayashi R, Cherry S, Tropea JE, Miller M, Wlodawer A, Appella E, Mazur SJ.

Biochemistry. 2009 Feb 17;48(6):1244-55. doi: 10.1021/bi801716h.

32.

Expression and purification of soluble His(6)-tagged TEV protease.

Tropea JE, Cherry S, Waugh DS.

Methods Mol Biol. 2009;498:297-307. doi: 10.1007/978-1-59745-196-3_19.

PMID:
18988033
33.

Novel fold of VirA, a type III secretion system effector protein from Shigella flexneri.

Davis J, Wang J, Tropea JE, Zhang D, Dauter Z, Waugh DS, Wlodawer A.

Protein Sci. 2008 Dec;17(12):2167-73. doi: 10.1110/ps.037978.108. Epub 2008 Sep 11.

34.

Structural characterization of the Yersinia pestis type III secretion system needle protein YscF in complex with its heterodimeric chaperone YscE/YscG.

Sun P, Tropea JE, Austin BP, Cherry S, Waugh DS.

J Mol Biol. 2008 Mar 28;377(3):819-30. doi: 10.1016/j.jmb.2007.12.067. Epub 2008 Jan 5.

35.

A stepwise model for double-stranded RNA processing by ribonuclease III.

Gan J, Shaw G, Tropea JE, Waugh DS, Court DL, Ji X.

Mol Microbiol. 2008 Jan;67(1):143-54. Epub 2007 Nov 27.

36.

Structure and activity of Yersinia pestis 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase as a novel target for the development of antiplague therapeutics.

Blaszczyk J, Li Y, Cherry S, Alexandratos J, Wu Y, Shaw G, Tropea JE, Waugh DS, Yan H, Ji X.

Acta Crystallogr D Biol Crystallogr. 2007 Nov;63(Pt 11):1169-77. Epub 2007 Oct 17.

PMID:
18007032
37.

The high-precision solution structure of Yersinia modulating protein YmoA provides insight into interaction with H-NS.

McFeeters RL, Altieri AS, Cherry S, Tropea JE, Waugh DS, Byrd RA.

Biochemistry. 2007 Dec 11;46(49):13975-82. Epub 2007 Nov 15.

PMID:
18001134
38.

Structure-assisted discovery of Variola major H1 phosphatase inhibitors.

Phan J, Tropea JE, Waugh DS.

Acta Crystallogr D Biol Crystallogr. 2007 Jun;63(Pt 6):698-704. Epub 2007 May 15.

PMID:
17505108
39.
40.

Human cytolytic T cell recognition of Yersinia pestis virulence proteins that target innate immune responses.

Saikh KU, Kissner TL, Dyas B, Tropea JE, Waugh DS, Ulrich RG.

J Infect Dis. 2006 Dec 15;194(12):1753-60. Epub 2006 Nov 2.

PMID:
17109349
41.

Structure of the POZ domain of human LRF, a master regulator of oncogenesis.

Schubot FD, Tropea JE, Waugh DS.

Biochem Biophys Res Commun. 2006 Dec 8;351(1):1-6. Epub 2006 Oct 9.

PMID:
17052694
42.
43.

Structural insight into the mechanism of double-stranded RNA processing by ribonuclease III.

Gan J, Tropea JE, Austin BP, Court DL, Waugh DS, Ji X.

Cell. 2006 Jan 27;124(2):355-66.

44.

Intermediate states of ribonuclease III in complex with double-stranded RNA.

Gan J, Tropea JE, Austin BP, Court DL, Waugh DS, Ji X.

Structure. 2005 Oct;13(10):1435-42.

45.

Atomic-resolution crystal structure of the proteolytic domain of Archaeoglobus fulgidus lon reveals the conformational variability in the active sites of lon proteases.

Botos I, Melnikov EE, Cherry S, Kozlov S, Makhovskaya OV, Tropea JE, Gustchina A, Rotanova TV, Wlodawer A.

J Mol Biol. 2005 Aug 5;351(1):144-57.

PMID:
16002085
46.

Crystal structure of the protease-resistant core domain of Yersinia pestis virulence factor YopR.

Schubot FD, Cherry S, Austin BP, Tropea JE, Waugh DS.

Protein Sci. 2005 Jun;14(6):1679-83.

47.

Three-dimensional structure of a macromolecular assembly that regulates type III secretion in Yersinia pestis.

Schubot FD, Jackson MW, Penrose KJ, Cherry S, Tropea JE, Plano GV, Waugh DS.

J Mol Biol. 2005 Mar 4;346(4):1147-61. Epub 2005 Jan 20.

PMID:
15701523
48.

Comparison of the substrate specificity of two potyvirus proteases.

Tözsér J, Tropea JE, Cherry S, Bagossi P, Copeland TD, Wlodawer A, Waugh DS.

FEBS J. 2005 Jan;272(2):514-23.

49.

Efficient site-specific processing of fusion proteins by tobacco vein mottling virus protease in vivo and in vitro.

Nallamsetty S, Kapust RB, Tözsér J, Cherry S, Tropea JE, Copeland TD, Waugh DS.

Protein Expr Purif. 2004 Nov;38(1):108-15.

PMID:
15477088
50.

Structure of the Yersinia pestis type III secretion chaperone SycH in complex with a stable fragment of YscM2.

Phan J, Tropea JE, Waugh DS.

Acta Crystallogr D Biol Crystallogr. 2004 Sep;60(Pt 9):1591-9. Epub 2004 Aug 26.

PMID:
15333930

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