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Items: 1 to 50 of 64

1.

Eigenvector centrality for characterization of protein allosteric pathways.

Negre CFA, Morzan UN, Hendrickson HP, Pal R, Lisi GP, Loria JP, Rivalta I, Ho J, Batista VS.

Proc Natl Acad Sci U S A. 2018 Dec 26;115(52):E12201-E12208. doi: 10.1073/pnas.1810452115. Epub 2018 Dec 10.

PMID:
30530700
2.

I260Q DNA polymerase β highlights precatalytic conformational rearrangements critical for fidelity.

Liptak C, Mahmoud MM, Eckenroth BE, Moreno MV, East K, Alnajjar KS, Huang J, Towle-Weicksel JB, Doublié S, Loria JP, Sweasy JB.

Nucleic Acids Res. 2018 Nov 16;46(20):10740-10756. doi: 10.1093/nar/gky825.

3.

A YopH PTP1B Chimera Shows the Importance of the WPD-Loop Sequence to the Activity, Structure, and Dynamics of Protein Tyrosine Phosphatases.

Moise G, Morales Y, Beaumont V, Caradonna T, Loria JP, Johnson SJ, Hengge AC.

Biochemistry. 2018 Sep 11;57(36):5315-5326. doi: 10.1021/acs.biochem.8b00663. Epub 2018 Aug 28.

PMID:
30110154
4.

Nanosecond Dynamics Regulate the MIF-Induced Activity of CD74.

Pantouris G, Ho J, Shah D, Syed MA, Leng L, Bhandari V, Bucala R, Batista VS, Loria JP, Lolis EJ.

Angew Chem Int Ed Engl. 2018 Jun 11;57(24):7116-7119. doi: 10.1002/anie.201803191. Epub 2018 May 9.

5.

Glutamine Hydrolysis by Imidazole Glycerol Phosphate Synthase Displays Temperature Dependent Allosteric Activation.

Lisi GP, Currier AA, Loria JP.

Front Mol Biosci. 2018 Feb 6;5:4. doi: 10.3389/fmolb.2018.00004. eCollection 2018.

6.

Allostery in enzyme catalysis.

Lisi GP, Loria JP.

Curr Opin Struct Biol. 2017 Dec;47:123-130. doi: 10.1016/j.sbi.2017.08.002. Epub 2017 Sep 1. Review.

PMID:
28865247
7.

Leveraging Reciprocity to Identify and Characterize Unknown Allosteric Sites in Protein Tyrosine Phosphatases.

Cui DS, Beaumont V, Ginther PS, Lipchock JM, Loria JP.

J Mol Biol. 2017 Jul 21;429(15):2360-2372. doi: 10.1016/j.jmb.2017.06.009. Epub 2017 Jun 16.

8.

Altering the allosteric pathway in IGPS suppresses millisecond motions and catalytic activity.

Lisi GP, East KW, Batista VS, Loria JP.

Proc Natl Acad Sci U S A. 2017 Apr 25;114(17):E3414-E3423. doi: 10.1073/pnas.1700448114. Epub 2017 Apr 10.

9.

Characterization of Protein Tyrosine Phosphatase 1B Inhibition by Chlorogenic Acid and Cichoric Acid.

Lipchock JM, Hendrickson HP, Douglas BB, Bird KE, Ginther PS, Rivalta I, Ten NS, Batista VS, Loria JP.

Biochemistry. 2017 Jan 10;56(1):96-106. doi: 10.1021/acs.biochem.6b01025. Epub 2016 Dec 27.

10.

Allosteric Communication Disrupted by a Small Molecule Binding to the Imidazole Glycerol Phosphate Synthase Protein-Protein Interface.

Rivalta I, Lisi GP, Snoeberger NS, Manley G, Loria JP, Batista VS.

Biochemistry. 2016 Nov 29;55(47):6484-6494. Epub 2016 Nov 11.

11.

Dissecting Dynamic Allosteric Pathways Using Chemically Related Small-Molecule Activators.

Lisi GP, Manley GA, Hendrickson H, Rivalta I, Batista VS, Loria JP.

Structure. 2016 Jul 6;24(7):1155-66. doi: 10.1016/j.str.2016.04.010. Epub 2016 May 26.

12.

Using NMR spectroscopy to elucidate the role of molecular motions in enzyme function.

Lisi GP, Loria JP.

Prog Nucl Magn Reson Spectrosc. 2016 Feb;92-93:1-17. doi: 10.1016/j.pnmrs.2015.11.001. Epub 2015 Dec 7. Review.

13.

Solution NMR Spectroscopy for the Study of Enzyme Allostery.

Lisi GP, Loria JP.

Chem Rev. 2016 Jun 8;116(11):6323-69. doi: 10.1021/acs.chemrev.5b00541. Epub 2016 Jan 6. Review.

14.

Induced Fit in the Selection of Correct versus Incorrect Nucleotides by DNA Polymerase β.

Moscato B, Swain M, Loria JP.

Biochemistry. 2016 Jan 19;55(2):382-95. doi: 10.1021/acs.biochem.5b01213. Epub 2015 Dec 30.

PMID:
26678253
15.

MoD-QM/MM Structural Refinement Method: Characterization of Hydrogen Bonding in the Oxytricha nova G-Quadruplex.

Ho J, Newcomer MB, Ragain CM, Gascon JA, Batista ER, Loria JP, Batista VS.

J Chem Theory Comput. 2014 Nov 11;10(11):5125-35. doi: 10.1021/ct500571k. Epub 2014 Oct 8.

16.

Movement and specificity in a modular DNA binding protein.

Liptak C, Loria JP.

Structure. 2015 Jun 2;23(6):973-4. doi: 10.1016/j.str.2015.05.004.

17.

Complexity of protein energy landscapes studied by solution NMR relaxation dispersion experiments.

Khirich G, Loria JP.

J Phys Chem B. 2015 Mar 5;119(9):3743-54. doi: 10.1021/acs.jpcb.5b00212. Epub 2015 Feb 20.

18.

Enzyme architecture: the effect of replacement and deletion mutations of loop 6 on catalysis by triosephosphate isomerase.

Zhai X, Go MK, O'Donoghue AC, Amyes TL, Pegan SD, Wang Y, Loria JP, Mesecar AD, Richard JP.

Biochemistry. 2014 Jun 3;53(21):3486-501. doi: 10.1021/bi500458t. Epub 2014 May 22.

19.

Accelerating multidimensional NMR and MRI experiments using iterated maps.

Frey MA, Sethna ZM, Manley GA, Sengupta S, Zilm KW, Loria JP, Barrett SE.

J Magn Reson. 2013 Dec;237:100-9. doi: 10.1016/j.jmr.2013.09.005. Epub 2013 Sep 21.

20.

¹H, ¹⁵N, and ¹³C backbone resonance assignments for the Yersinia protein tyrosine phosphatase YopH.

Whittier SK, Loria JP.

Biomol NMR Assign. 2014 Oct;8(2):387-9. doi: 10.1007/s12104-013-9524-0. Epub 2013 Sep 12.

21.

What's in your buffer? Solute altered millisecond motions detected by solution NMR.

Wong M, Khirich G, Loria JP.

Biochemistry. 2013 Sep 17;52(37):6548-58. doi: 10.1021/bi400973e. Epub 2013 Aug 30. Erratum in: Biochemistry. 2013 Oct 8;52(40):7160.

22.

Conformational motions regulate phosphoryl transfer in related protein tyrosine phosphatases.

Whittier SK, Hengge AC, Loria JP.

Science. 2013 Aug 23;341(6148):899-903. doi: 10.1126/science.1241735.

23.

Structural mutations that probe the interactions between the catalytic and dianion activation sites of triosephosphate isomerase.

Zhai X, Amyes TL, Wierenga RK, Loria JP, Richard JP.

Biochemistry. 2013 Aug 27;52(34):5928-40. doi: 10.1021/bi401019h. Epub 2013 Aug 16.

24.

MIF intersubunit disulfide mutant antagonist supports activation of CD74 by endogenous MIF trimer at physiologic concentrations.

Fan C, Rajasekaran D, Syed MA, Leng L, Loria JP, Bhandari V, Bucala R, Lolis EJ.

Proc Natl Acad Sci U S A. 2013 Jul 2;110(27):10994-9. doi: 10.1073/pnas.1221817110. Epub 2013 Jun 17.

25.

Solution NMR and computational methods for understanding protein allostery.

Manley G, Rivalta I, Loria JP.

J Phys Chem B. 2013 Mar 21;117(11):3063-73. doi: 10.1021/jp312576v. Epub 2013 Mar 12.

26.

Allosteric pathways in imidazole glycerol phosphate synthase.

Rivalta I, Sultan MM, Lee NS, Manley GA, Loria JP, Batista VS.

Proc Natl Acad Sci U S A. 2012 May 29;109(22):E1428-36. doi: 10.1073/pnas.1120536109. Epub 2012 May 14.

27.

Substrate-dependent millisecond domain motions in DNA polymerase β.

Berlow RB, Swain M, Dalal S, Sweasy JB, Loria JP.

J Mol Biol. 2012 Jun 8;419(3-4):171-82. doi: 10.1016/j.jmb.2012.03.013. Epub 2012 Mar 23.

28.

NMR insights into protein allostery.

Manley G, Loria JP.

Arch Biochem Biophys. 2012 Mar 15;519(2):223-31. doi: 10.1016/j.abb.2011.10.023. Epub 2011 Dec 16. Review.

29.

Reengineering rate-limiting, millisecond enzyme motions by introduction of an unnatural amino acid.

Watt ED, Rivalta I, Whittier SK, Batista VS, Loria JP.

Biophys J. 2011 Jul 20;101(2):411-20. doi: 10.1016/j.bpj.2011.05.039.

30.

Alteration of hydrogen bonding in the vicinity of histidine 48 disrupts millisecond motions in RNase A.

Doucet N, Khirich G, Kovrigin EL, Loria JP.

Biochemistry. 2011 Mar 15;50(10):1723-30. doi: 10.1021/bi1018539. Epub 2011 Feb 10.

PMID:
21250662
31.

Nanometer propagation of millisecond motions in V-type allostery.

Lipchock JM, Loria JP.

Structure. 2010 Dec 8;18(12):1596-607. doi: 10.1016/j.str.2010.09.020.

32.

The crystal structure of ribonuclease A in complex with thymidine-3'-monophosphate provides further insight into ligand binding.

Doucet N, Jayasundera TB, Simonović M, Loria JP.

Proteins. 2010 Aug 15;78(11):2459-68. doi: 10.1002/prot.22754.

PMID:
20602460
33.

Helix stabilization precedes aqueous and bilayer-catalyzed fiber formation in islet amyloid polypeptide.

Williamson JA, Loria JP, Miranker AD.

J Mol Biol. 2009 Oct 23;393(2):383-96. doi: 10.1016/j.jmb.2009.07.077. Epub 2009 Jul 30.

34.

1H, 15N and 13C resonance assignment of imidazole glycerol phosphate (IGP) synthase protein HisF from Thermotoga maritima.

Lipchock JM, Loria JP.

Biomol NMR Assign. 2008 Dec;2(2):219-21. doi: 10.1007/s12104-008-9125-5. Epub 2008 Oct 7.

35.

The flexibility of a distant loop modulates active site motion and product release in ribonuclease A.

Doucet N, Watt ED, Loria JP.

Biochemistry. 2009 Aug 4;48(30):7160-8. doi: 10.1021/bi900830g.

36.

Millisecond dynamics in the allosteric enzyme imidazole glycerol phosphate synthase (IGPS) from Thermotoga maritima.

Lipchock J, Loria JP.

J Biomol NMR. 2009 Sep;45(1-2):73-84. doi: 10.1007/s10858-009-9337-8. Epub 2009 Jun 30.

37.

Role of loop-loop interactions in coordinating motions and enzymatic function in triosephosphate isomerase.

Wang Y, Berlow RB, Loria JP.

Biochemistry. 2009 Jun 2;48(21):4548-56. doi: 10.1021/bi9002887.

38.

Monitoring molecular interactions by NMR.

Lipchock JM, Loria JP.

Methods Mol Biol. 2009;490:115-34. doi: 10.1007/978-1-59745-367-7_5.

PMID:
19157081
39.

Characterization of enzyme motions by solution NMR relaxation dispersion.

Loria JP, Berlow RB, Watt ED.

Acc Chem Res. 2008 Feb;41(2):214-21. doi: 10.1021/ar700132n. Epub 2008 Feb 19. Review.

PMID:
18281945
40.

The mechanism of rate-limiting motions in enzyme function.

Watt ED, Shimada H, Kovrigin EL, Loria JP.

Proc Natl Acad Sci U S A. 2007 Jul 17;104(29):11981-6. Epub 2007 Jul 5.

41.
42.

Value of a hydrogen bond in triosephosphate isomerase loop motion.

Berlow RB, Igumenova TI, Loria JP.

Biochemistry. 2007 May 22;46(20):6001-10. Epub 2007 Apr 25.

PMID:
17455914
43.

Dynamic requirements for a functional protein hinge.

Kempf JG, Jung JY, Ragain C, Sampson NS, Loria JP.

J Mol Biol. 2007 Apr 20;368(1):131-49. Epub 2007 Feb 3.

44.
45.

Crystallization and characterization of the thallium form of the Oxytricha nova G-quadruplex.

Gill ML, Strobel SA, Loria JP.

Nucleic Acids Res. 2006;34(16):4506-14. Epub 2006 Aug 31.

46.

Characterization of the transition state of functional enzyme dynamics.

Kovrigin EL, Loria JP.

J Am Chem Soc. 2006 Jun 21;128(24):7724-5.

PMID:
16771471
47.

Enzyme dynamics along the reaction coordinate: critical role of a conserved residue.

Kovrigin EL, Loria JP.

Biochemistry. 2006 Feb 28;45(8):2636-47.

PMID:
16489757
48.

Faithful estimation of dynamics parameters from CPMG relaxation dispersion measurements.

Kovrigin EL, Kempf JG, Grey MJ, Loria JP.

J Magn Reson. 2006 May;180(1):93-104. Epub 2006 Feb 3.

PMID:
16458551
49.

205Tl NMR methods for the characterization of monovalent cation binding to nucleic acids.

Gill ML, Strobel SA, Loria JP.

J Am Chem Soc. 2005 Nov 30;127(47):16723-32.

PMID:
16305263
50.

Conservation of mus-ms enzyme motions in the apo- and substrate-mimicked state.

Beach H, Cole R, Gill ML, Loria JP.

J Am Chem Soc. 2005 Jun 29;127(25):9167-76.

PMID:
15969595

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