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Items: 1 to 50 of 62

1.

The Evolution of SlyA/RovA Transcription Factors from Repressors to Countersilencers in Enterobacteriaceae.

Will WR, Brzovic P, Le Trong I, Stenkamp RE, Lawrenz MB, Karlinsey JE, Navarre WW, Main-Hester K, Miller VL, Libby SJ, Fang FC.

mBio. 2019 Mar 5;10(2). pii: e00009-19. doi: 10.1128/mBio.00009-19.

2.

A Streptavidin Binding Site Mutation Yields an Unexpected Result: An Ionized Asp128 Residue Is Not Essential for Strong Biotin Binding.

Baugh L, Le Trong I, Stayton PS, Stenkamp RE, Lybrand TP.

Biochemistry. 2016 Sep 20;55(37):5201-3. doi: 10.1021/acs.biochem.6b00698. Epub 2016 Sep 8.

3.

The role of cytochrome P450 BM3 phenylalanine-87 and threonine-268 in binding organic hydroperoxides.

Roberts AG, Katayama J, Kaspera R, Ledwitch KV, Le Trong I, Stenkamp RE, Thompson JA, Totah RA.

Biochim Biophys Acta. 2016 Apr;1860(4):669-77. doi: 10.1016/j.bbagen.2015.12.014. Epub 2015 Dec 23.

PMID:
26723172
4.

Comparison of epsilon- and delta-class glutathione S-transferases: the crystal structures of the glutathione S-transferases DmGSTE6 and DmGSTE7 from Drosophila melanogaster.

Scian M, Le Trong I, Mazari AM, Mannervik B, Atkins WM, Stenkamp RE.

Acta Crystallogr D Biol Crystallogr. 2015 Oct;71(Pt 10):2089-98. doi: 10.1107/S1399004715013929. Epub 2015 Sep 26.

5.

E2~Ub conjugates regulate the kinase activity of Shigella effector OspG during pathogenesis.

Pruneda JN, Smith FD, Daurie A, Swaney DL, Villén J, Scott JD, Stadnyk AW, Le Trong I, Stenkamp RE, Klevit RE, Rohde JR, Brzovic PS.

EMBO J. 2014 Mar 3;33(5):437-49. doi: 10.1002/embj.201386386. Epub 2014 Jan 20.

6.

Structural consequences of cutting a binding loop: two circularly permuted variants of streptavidin.

Le Trong I, Chu V, Xing Y, Lybrand TP, Stayton PS, Stenkamp RE.

Acta Crystallogr D Biol Crystallogr. 2013 Jun;69(Pt 6):968-77. doi: 10.1107/S0907444913003855. Epub 2013 May 11.

7.

Crystal and NMR structures of a Trp-cage mini-protein benchmark for computational fold prediction.

Scian M, Lin JC, Le Trong I, Makhatadze GI, Stenkamp RE, Andersen NH.

Proc Natl Acad Sci U S A. 2012 Jul 31;109(31):12521-5. doi: 10.1073/pnas.1121421109. Epub 2012 Jul 16.

8.

Structural basis for type VI secretion effector recognition by a cognate immunity protein.

Li M, Le Trong I, Carl MA, Larson ET, Chou S, De Leon JA, Dove SL, Stenkamp RE, Mougous JD.

PLoS Pathog. 2012;8(4):e1002613. doi: 10.1371/journal.ppat.1002613. Epub 2012 Apr 12.

9.

Second-contact shell mutation diminishes streptavidin-biotin binding affinity through transmitted effects on equilibrium dynamics.

Baugh L, Le Trong I, Cerutti DS, Mehta N, Gülich S, Stayton PS, Stenkamp RE, Lybrand TP.

Biochemistry. 2012 Jan 17;51(2):597-607. doi: 10.1021/bi201221j. Epub 2012 Jan 3.

10.

Streptavidin and its biotin complex at atomic resolution.

Le Trong I, Wang Z, Hyre DE, Lybrand TP, Stayton PS, Stenkamp RE.

Acta Crystallogr D Biol Crystallogr. 2011 Sep;67(Pt 9):813-21. doi: 10.1107/S0907444911027806. Epub 2011 Aug 9.

11.

The bacterial fimbrial tip acts as a mechanical force sensor.

Aprikian P, Interlandi G, Kidd BA, Le Trong I, Tchesnokova V, Yakovenko O, Whitfield MJ, Bullitt E, Stenkamp RE, Thomas WE, Sokurenko EV.

PLoS Biol. 2011 May;9(5):e1000617. doi: 10.1371/journal.pbio.1000617. Epub 2011 May 10.

12.

Donor strand exchange and conformational changes during E. coli fimbrial formation.

Le Trong I, Aprikian P, Kidd BA, Thomas WE, Sokurenko EV, Stenkamp RE.

J Struct Biol. 2010 Dec;172(3):380-8. doi: 10.1016/j.jsb.2010.06.002. Epub 2010 Jun 4.

13.

Structural basis for mechanical force regulation of the adhesin FimH via finger trap-like beta sheet twisting.

Le Trong I, Aprikian P, Kidd BA, Forero-Shelton M, Tchesnokova V, Rajagopal P, Rodriguez V, Interlandi G, Klevit R, Vogel V, Stenkamp RE, Sokurenko EV, Thomas WE.

Cell. 2010 May 14;141(4):645-55. doi: 10.1016/j.cell.2010.03.038.

14.

A distal point mutation in the streptavidin-biotin complex preserves structure but diminishes binding affinity: experimental evidence of electronic polarization effects?

Baugh L, Le Trong I, Cerutti DS, Gülich S, Stayton PS, Stenkamp RE, Lybrand TP.

Biochemistry. 2010 Jun 8;49(22):4568-70. doi: 10.1021/bi1005392.

15.

Atomic resolution studies of carbonic anhydrase II.

Behnke CA, Le Trong I, Godden JW, Merritt EA, Teller DC, Bajorath J, Stenkamp RE.

Acta Crystallogr D Biol Crystallogr. 2010 May;66(Pt 5):616-27. doi: 10.1107/S0907444910006554. Epub 2010 Apr 21.

16.

Substrate specificity combined with stereopromiscuity in glutathione transferase A4-4-dependent metabolism of 4-hydroxynonenal.

Balogh LM, Le Trong I, Kripps KA, Shireman LM, Stenkamp RE, Zhang W, Mannervik B, Atkins WM.

Biochemistry. 2010 Feb 23;49(7):1541-8. doi: 10.1021/bi902038u.

17.

Structural analysis of a glutathione transferase A1-1 mutant tailored for high catalytic efficiency with toxic alkenals.

Balogh LM, Le Trong I, Kripps KA, Tars K, Stenkamp RE, Mannervik B, Atkins WM.

Biochemistry. 2009 Aug 18;48(32):7698-704. doi: 10.1021/bi900895b.

18.

Dynamics of the streptavidin-biotin complex in solution and in its crystal lattice: distinct behavior revealed by molecular simulations.

Cerutti DS, Le Trong I, Stenkamp RE, Lybrand TP.

J Phys Chem B. 2009 May 14;113(19):6971-85. doi: 10.1021/jp9010372.

19.

Simulations of a protein crystal: explicit treatment of crystallization conditions links theory and experiment in the streptavidin-biotin complex.

Cerutti DS, Le Trong I, Stenkamp RE, Lybrand TP.

Biochemistry. 2008 Nov 18;47(46):12065-77. doi: 10.1021/bi800894u. Epub 2008 Oct 25.

20.

Structural genomics of pathogenic protozoa: an overview.

Fan E, Baker D, Fields S, Gelb MH, Buckner FS, Van Voorhis WC, Phizicky E, Dumont M, Mehlin C, Grayhack E, Sullivan M, Verlinde C, Detitta G, Meldrum DR, Merritt EA, Earnest T, Soltis M, Zucker F, Myler PJ, Schoenfeld L, Kim D, Worthey L, Lacount D, Vignali M, Li J, Mondal S, Massey A, Carroll B, Gulde S, Luft J, Desoto L, Holl M, Caruthers J, Bosch J, Robien M, Arakaki T, Holmes M, Le Trong I, Hol WG.

Methods Mol Biol. 2008;426:497-513. doi: 10.1007/978-1-60327-058-8_33. Review.

PMID:
18542886
21.

Crystal structures of human 108V and 108M catechol O-methyltransferase.

Rutherford K, Le Trong I, Stenkamp RE, Parson WW.

J Mol Biol. 2008 Jun 27;380(1):120-30. doi: 10.1016/j.jmb.2008.04.040. Epub 2008 Apr 23.

PMID:
18486144
22.

Crystal structure of the BARD1 ankyrin repeat domain and its functional consequences.

Fox D 3rd, Le Trong I, Rajagopal P, Brzovic PS, Stenkamp RE, Klevit RE.

J Biol Chem. 2008 Jul 25;283(30):21179-86. doi: 10.1074/jbc.M802333200. Epub 2008 May 14.

23.

Alternative models for two crystal structures of Candida albicans 3,4-dihydroxy-2-butanone 4-phosphate synthase.

Le Trong I, Stenkamp RE.

Acta Crystallogr D Biol Crystallogr. 2008 Feb;64(Pt 2):219-20. doi: 10.1107/S0907444907056132. Epub 2008 Jan 16.

PMID:
18219123
24.

Binding of Dr adhesins of Escherichia coli to carcinoembryonic antigen triggers receptor dissociation.

Korotkova N, Yang Y, Le Trong I, Cota E, Demeler B, Marchant J, Thomas WE, Stenkamp RE, Moseley SL, Matthews S.

Mol Microbiol. 2008 Jan;67(2):420-34. Epub 2007 Dec 11.

25.

Reprint of "Crystal packing analysis of Rhodopsin crystals" [J. Struct. Biol. 158 (2007) 455-462].

Lodowski DT, Salom D, Le Trong I, Teller DC, Ballesteros JA, Palczewski K, Stenkamp RE.

J Struct Biol. 2007 Aug;159(2):253-60.

PMID:
17660064
26.

Crystal packing analysis of Rhodopsin crystals.

Lodowski DT, Salom D, Le Trong I, Teller DC, Ballesteros JA, Palczewski K, Stenkamp RE.

J Struct Biol. 2007 Jun;158(3):455-62. Epub 2007 Feb 9.

27.

An alternate description of two crystal structures of phospholipase A2 from Bungarus caeruleus.

Le Trong I, Stenkamp RE.

Acta Crystallogr D Biol Crystallogr. 2007 Apr;63(Pt 4):548-9. Epub 2007 Mar 16.

PMID:
17372360
28.

Crystal structure of a photoactivated deprotonated intermediate of rhodopsin.

Salom D, Lodowski DT, Stenkamp RE, Le Trong I, Golczak M, Jastrzebska B, Harris T, Ballesteros JA, Palczewski K.

Proc Natl Acad Sci U S A. 2006 Oct 31;103(44):16123-8. Epub 2006 Oct 23.

29.

Improvements in G protein-coupled receptor purification yield light stable rhodopsin crystals.

Salom D, Le Trong I, Pohl E, Ballesteros JA, Stenkamp RE, Palczewski K, Lodowski DT.

J Struct Biol. 2006 Dec;156(3):497-504. Epub 2006 Jun 2.

PMID:
16837211
30.

Crystal structure and mutational analysis of the DaaE adhesin of Escherichia coli.

Korotkova N, Le Trong I, Samudrala R, Korotkov K, Van Loy CP, Bui AL, Moseley SL, Stenkamp RE.

J Biol Chem. 2006 Aug 4;281(31):22367-77. Epub 2006 Jun 2.

31.

The high-resolution structure of (+)-epi-biotin bound to streptavidin.

Le Trong I, Aubert DG, Thomas NR, Stenkamp RE.

Acta Crystallogr D Biol Crystallogr. 2006 Jun;62(Pt 6):576-81. Epub 2006 May 12.

PMID:
16699183
32.

Structure of Lmaj006129AAA, a hypothetical protein from Leishmania major.

Arakaki T, Le Trong I, Phizicky E, Quartley E, DeTitta G, Luft J, Lauricella A, Anderson L, Kalyuzhniy O, Worthey E, Myler PJ, Kim D, Baker D, Hol WG, Merritt EA.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2006 Mar 1;62(Pt 3):175-9. Epub 2006 Feb 24.

33.

Cooperative hydrogen bond interactions in the streptavidin-biotin system.

Hyre DE, Le Trong I, Merritt EA, Eccleston JF, Green NM, Stenkamp RE, Stayton PS.

Protein Sci. 2006 Mar;15(3):459-67. Epub 2006 Feb 1.

34.

Crystallographic analysis of a full-length streptavidin with its C-terminal polypeptide bound in the biotin binding site.

Le Trong I, Humbert N, Ward TR, Stenkamp RE.

J Mol Biol. 2006 Feb 24;356(3):738-45. Epub 2005 Dec 15.

PMID:
16384581
35.

Crystal structures and proposed structural/functional classification of three protozoan proteins from the isochorismatase superfamily.

Caruthers J, Zucker F, Worthey E, Myler PJ, Buckner F, Van Voorhuis W, Mehlin C, Boni E, Feist T, Luft J, Gulde S, Lauricella A, Kaluzhniy O, Anderson L, Le Trong I, Holmes MA, Earnest T, Soltis M, Hodgson KO, Hol WG, Merritt EA.

Protein Sci. 2005 Nov;14(11):2887-94. Epub 2005 Sep 30.

36.

Crystal structure of a beta-catenin/APC complex reveals a critical role for APC phosphorylation in APC function.

Xing Y, Clements WK, Le Trong I, Hinds TR, Stenkamp R, Kimelman D, Xu W.

Mol Cell. 2004 Aug 27;15(4):523-33.

37.

Structural studies of hydrogen bonds in the high-affinity streptavidin-biotin complex: mutations of amino acids interacting with the ureido oxygen of biotin.

Le Trong I, Freitag S, Klumb LA, Chu V, Stayton PS, Stenkamp RE.

Acta Crystallogr D Biol Crystallogr. 2003 Sep;59(Pt 9):1567-73. Epub 2003 Aug 19.

PMID:
12925786
38.

Structural characterization and comparison of RGD cell-adhesion recognition sites engineered into streptavidin.

Le Trong I, McDevitt TC, Nelson KE, Stayton PS, Stenkamp RE.

Acta Crystallogr D Biol Crystallogr. 2003 May;59(Pt 5):828-34. Epub 2003 Apr 25.

PMID:
12777798
39.

Crystal structures and increased stabilization of the protein G variants with switched folding pathways NuG1 and NuG2.

Nauli S, Kuhlman B, Le Trong I, Stenkamp RE, Teller D, Baker D.

Protein Sci. 2002 Dec;11(12):2924-31.

40.

1.3-A resolution structure of human glutathione S-transferase with S-hexyl glutathione bound reveals possible extended ligandin binding site.

Le Trong I, Stenkamp RE, Ibarra C, Atkins WM, Adman ET.

Proteins. 2002 Sep 1;48(4):618-27.

PMID:
12211029
41.

Early mechanistic events in biotin dissociation from streptavidin.

Hyre DE, Amon LM, Penzotti JE, Le Trong I, Stenkamp RE, Lybrand TP, Stayton PS.

Nat Struct Biol. 2002 Aug;9(8):582-5.

PMID:
12134141
42.

Theoretical and experimental studies of biotin analogues that bind almost as tightly to streptavidin as biotin.

Dixon RW, Radmer RJ, Kuhn B, Kollman PA, Yang J, Raposo C, Wilcox CS, Klumb LA, Stayton PS, Behnke C, Le Trong I, Stenkamp R.

J Org Chem. 2002 Mar 22;67(6):1827-37.

PMID:
11895399
43.

Localization of the C-terminus of rat glutathione S-transferase A1-1: crystal structure of mutants W21F and W21F/F220Y.

Adman ET, Le Trong I, Stenkamp RE, Nieslanik BS, Dietze EC, Tai G, Ibarra C, Atkins WM.

Proteins. 2001 Feb 1;42(2):192-200.

PMID:
11119643
44.

The 1.9 A crystal structure of the "as isolated" rubrerythrin from Desulfovibrio vulgaris: some surprising results.

Sieker LC, Holmes M, Le Trong I, Turley S, Liu MY, LeGall J, Stenkamp RE.

J Biol Inorg Chem. 2000 Aug;5(4):505-13.

PMID:
10968622
45.

Crystal structure of rhodopsin: A G protein-coupled receptor.

Palczewski K, Kumasaka T, Hori T, Behnke CA, Motoshima H, Fox BA, Le Trong I, Teller DC, Okada T, Stenkamp RE, Yamamoto M, Miyano M.

Science. 2000 Aug 4;289(5480):739-45.

46.
47.

X-Ray diffraction analysis of three-dimensional crystals of bovine rhodopsin obtained from mixed micelles.

Okada T, Le Trong I, Fox BA, Behnke CA, Stenkamp RE, Palczewski K.

J Struct Biol. 2000 May;130(1):73-80.

PMID:
10806093
48.

Streptavidin-biotin binding energetics.

Stayton PS, Freitag S, Klumb LA, Chilkoti A, Chu V, Penzotti JE, To R, Hyre D, Le Trong I, Lybrand TP, Stenkamp RE.

Biomol Eng. 1999 Dec 31;16(1-4):39-44. Review.

PMID:
10796983
49.

X-ray crystallographic studies of streptavidin mutants binding to biotin.

Freitag S, Le Trong I, Klumb LA, Chu V, Chilkoti A, Stayton PS, Stenkamp RE.

Biomol Eng. 1999 Dec 31;16(1-4):13-9.

PMID:
10796980
50.

A structural snapshot of an intermediate on the streptavidin-biotin dissociation pathway.

Freitag S, Chu V, Penzotti JE, Klumb LA, To R, Hyre D, Le Trong I, Lybrand TP, Stenkamp RE, Stayton PS.

Proc Natl Acad Sci U S A. 1999 Jul 20;96(15):8384-9.

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