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Items: 1 to 50 of 164

1.

Cryo-EM structure of OSCA1.2 from Oryza sativa elucidates the mechanical basis of potential membrane hyperosmolality gating.

Maity K, Heumann JM, McGrath AP, Kopcho NJ, Hsu PK, Lee CW, Mapes JH, Garza D, Krishnan S, Morgan GP, Hendargo KJ, Klose T, Rees SD, Medrano-Soto A, Saier MH Jr, Piñeros M, Komives EA, Schroeder JI, Chang G, Stowell MHB.

Proc Natl Acad Sci U S A. 2019 Jul 9;116(28):14309-14318. doi: 10.1073/pnas.1900774116. Epub 2019 Jun 21.

PMID:
31227607
2.

Exclusivity and Compensation in NFκB Dimer Distributions and IκB Inhibition.

Ramsey KM, Chen W, Marion JD, Bergqvist S, Komives EA.

Biochemistry. 2019 May 28;58(21):2555-2563. doi: 10.1021/acs.biochem.9b00008. Epub 2019 May 14.

PMID:
31033276
3.

Developing and evaluating a pharmacy technician home visit program.

Fuller K, Gregory P, Liu B, Komives E, Smith B.

Am J Health Syst Pharm. 2019 Feb 9;76(5):263-264. doi: 10.1093/ajhp/zxy039. No abstract available.

PMID:
30698653
4.

Accurate Prediction of Amide Exchange in the Fast Limit Reveals Thrombin Allostery.

Markwick PRL, Peacock RB, Komives EA.

Biophys J. 2019 Jan 8;116(1):49-56. doi: 10.1016/j.bpj.2018.11.023. Epub 2018 Nov 24.

5.

Deciphering and engineering chromodomain-methyllysine peptide recognition.

Hard R, Li N, He W, Ross B, Mo GCH, Peng Q, Stein RSL, Komives E, Wang Y, Zhang J, Wang W.

Sci Adv. 2018 Nov 7;4(11):eaau1447. doi: 10.1126/sciadv.aau1447. eCollection 2018 Nov.

6.

Calcium sensing by the STIM1 ER-luminal domain.

Gudlur A, Zeraik AE, Hirve N, Rajanikanth V, Bobkov AA, Ma G, Zheng S, Wang Y, Zhou Y, Komives EA, Hogan PG.

Nat Commun. 2018 Oct 31;9(1):4536. doi: 10.1038/s41467-018-06816-8.

7.
8.

RNAs interact with BRD4 to promote enhanced chromatin engagement and transcription activation.

Rahnamoun H, Lee J, Sun Z, Lu H, Ramsey KM, Komives EA, Lauberth SM.

Nat Struct Mol Biol. 2018 Aug;25(8):687-697. doi: 10.1038/s41594-018-0102-0. Epub 2018 Aug 3.

PMID:
30076409
9.

Dynamic Consequences of Mutation of Tryptophan 215 in Thrombin.

Peacock RB, Davis JR, Markwick PRL, Komives EA.

Biochemistry. 2018 May 8;57(18):2694-2703. doi: 10.1021/acs.biochem.8b00262. Epub 2018 Apr 19.

10.

Hydrogen-deuterium exchange mass spectrometry reveals folding and allostery in protein-protein interactions.

Ramirez-Sarmiento CA, Komives EA.

Methods. 2018 Jul 15;144:43-52. doi: 10.1016/j.ymeth.2018.04.001. Epub 2018 Apr 6. Review.

11.

RelA-Containing NFκB Dimers Have Strikingly Different DNA-Binding Cavities in the Absence of DNA.

Narang D, Chen W, Ricci CG, Komives EA.

J Mol Biol. 2018 May 11;430(10):1510-1520. doi: 10.1016/j.jmb.2018.03.020. Epub 2018 Apr 3.

12.

Ligand binding modulates the structural dynamics and activity of urokinase-type plasminogen activator: A possible mechanism of plasminogen activation.

Kromann-Hansen T, Lange EL, Lund IK, Høyer-Hansen G, Andreasen PA, Komives EA.

PLoS One. 2018 Feb 8;13(2):e0192661. doi: 10.1371/journal.pone.0192661. eCollection 2018.

13.

Conformational dynamics of the Hop1 HORMA domain reveal a common mechanism with the spindle checkpoint protein Mad2.

West AMV, Komives EA, Corbett KD.

Nucleic Acids Res. 2018 Jan 9;46(1):279-292. doi: 10.1093/nar/gkx1196.

14.

Resolving the NFκB Heterodimer Binding Paradox: Strain and Frustration Guide the Binding of Dimeric Transcription Factors.

Potoyan DA, Bueno C, Zheng W, Komives EA, Wolynes PG.

J Am Chem Soc. 2017 Dec 27;139(51):18558-18566. doi: 10.1021/jacs.7b08741. Epub 2017 Dec 15.

15.

Structural Basis for Shelterin Bridge Assembly.

Kim JK, Liu J, Hu X, Yu C, Roskamp K, Sankaran B, Huang L, Komives EA, Qiao F.

Mol Cell. 2017 Nov 16;68(4):698-714.e5. doi: 10.1016/j.molcel.2017.10.032.

16.

Frustration, function and folding.

Ferreiro DU, Komives EA, Wolynes PG.

Curr Opin Struct Biol. 2018 Feb;48:68-73. doi: 10.1016/j.sbi.2017.09.006. Epub 2017 Nov 5. Review.

17.

Site-specific identification and quantitation of endogenous SUMO modifications under native conditions.

Lumpkin RJ, Gu H, Zhu Y, Leonard M, Ahmad AS, Clauser KR, Meyer JG, Bennett EJ, Komives EA.

Nat Commun. 2017 Oct 27;8(1):1171. doi: 10.1038/s41467-017-01271-3.

18.

Monomeric ephrinB2 binding induces allosteric changes in Nipah virus G that precede its full activation.

Wong JJW, Young TA, Zhang J, Liu S, Leser GP, Komives EA, Lamb RA, Zhou ZH, Salafsky J, Jardetzky TS.

Nat Commun. 2017 Oct 3;8(1):781. doi: 10.1038/s41467-017-00863-3.

19.

Discovery of a novel conformational equilibrium in urokinase-type plasminogen activator.

Kromann-Hansen T, Louise Lange E, Peter Sørensen H, Hassanzadeh-Ghassabeh G, Huang M, Jensen JK, Muyldermans S, Declerck PJ, Komives EA, Andreasen PA.

Sci Rep. 2017 Jun 13;7(1):3385. doi: 10.1038/s41598-017-03457-7.

20.

Unusual dimerization of a BcCsp mutant leads to reduced conformational dynamics.

Carvajal AI, Vallejos G, Komives EA, Castro-Fernández V, Leonardo DA, Garratt RC, Ramírez-Sarmiento CA, Babul J.

FEBS J. 2017 Jun;284(12):1882-1896. doi: 10.1111/febs.14093. Epub 2017 May 21.

21.

DNA and IκBα Both Induce Long-Range Conformational Changes in NFκB.

Ramsey KM, Dembinski HE, Chen W, Ricci CG, Komives EA.

J Mol Biol. 2017 Apr 7;429(7):999-1008. doi: 10.1016/j.jmb.2017.02.017. Epub 2017 Feb 27.

22.

Functional importance of stripping in NFκB signaling revealed by a stripping-impaired IκBα mutant.

Dembinski HE, Wismer K, Vargas JD, Suryawanshi GW, Kern N, Kroon G, Dyson HJ, Hoffmann A, Komives EA.

Proc Natl Acad Sci U S A. 2017 Feb 21;114(8):1916-1921. doi: 10.1073/pnas.1610192114. Epub 2017 Feb 6.

23.

NMR reveals a dynamic allosteric pathway in thrombin.

Handley LD, Fuglestad B, Stearns K, Tonelli M, Fenwick RB, Markwick PR, Komives EA.

Sci Rep. 2017 Jan 6;7:39575. doi: 10.1038/srep39575.

24.

Is the Move to Value-Based Care More Than Managed Care Redux?

Komives E.

N C Med J. 2016 Jul-Aug;77(4):283-5. doi: 10.18043/ncm.77.4.283.

25.

Model of the Ankyrin and SOCS Box Protein, ASB9, E3 Ligase Reveals a Mechanism for Dynamic Ubiquitin Transfer.

Schiffer JM, Malmstrom RD, Parnell J, Ramirez-Sarmiento C, Reyes J, Amaro RE, Komives EA.

Structure. 2016 Aug 2;24(8):1248-1256. doi: 10.1016/j.str.2016.05.016. Epub 2016 Jul 7.

26.

Three-Dimensional Domain Swapping Changes the Folding Mechanism of the Forkhead Domain of FoxP1.

Medina E, Córdova C, Villalobos P, Reyes J, Komives EA, Ramírez-Sarmiento CA, Babul J.

Biophys J. 2016 Jun 7;110(11):2349-2360. doi: 10.1016/j.bpj.2016.04.043.

27.

Structural characterization of the ternary complex that mediates termination of NF-κB signaling by IκBα.

Mukherjee SP, Quintas PO, McNulty R, Komives EA, Dyson HJ.

Proc Natl Acad Sci U S A. 2016 May 31;113(22):6212-7. doi: 10.1073/pnas.1603488113. Epub 2016 May 16.

28.

PEST Control of Molecular Stripping of NFκB from DNA Transcription Sites.

Potoyan DA, Zheng W, Ferreiro DU, Wolynes PG, Komives EA.

J Phys Chem B. 2016 Aug 25;120(33):8532-8. doi: 10.1021/acs.jpcb.6b02359. Epub 2016 May 3.

29.

Binding of NFκB Appears to Twist the Ankyrin Repeat Domain of IκBα.

Trelle MB, Ramsey KM, Lee TC, Zheng W, Lamboy J, Wolynes PG, Deniz A, Komives EA.

Biophys J. 2016 Feb 23;110(4):887-95. doi: 10.1016/j.bpj.2016.01.001.

30.

Molecular stripping in the NF-κB/IκB/DNA genetic regulatory network.

Potoyan DA, Zheng W, Komives EA, Wolynes PG.

Proc Natl Acad Sci U S A. 2016 Jan 5;113(1):110-5. doi: 10.1073/pnas.1520483112. Epub 2015 Dec 23.

31.

Thrombomodulin Binding Selects the Catalytically Active Form of Thrombin.

Handley LD, Treuheit NA, Venkatesh VJ, Komives EA.

Biochemistry. 2015 Nov 3;54(43):6650-8. doi: 10.1021/acs.biochem.5b00825. Epub 2015 Oct 26.

32.

The folding unit of phosphofructokinase-2 as defined by the biophysical properties of a monomeric mutant.

Ramírez-Sarmiento CA, Baez M, Zamora RA, Balasubramaniam D, Babul J, Komives EA, Guixé V.

Biophys J. 2015 May 5;108(9):2350-61. doi: 10.1016/j.bpj.2015.04.001.

33.

Resolving pathways of interaction of mipafox and a sarin analog with human acetylcholinesterase by kinetics, mass spectrometry and molecular modeling approaches.

Mangas I, Taylor P, Vilanova E, Estévez J, França TC, Komives E, Radić Z.

Arch Toxicol. 2016 Mar;90(3):603-16. doi: 10.1007/s00204-015-1481-1. Epub 2015 Mar 6.

34.

How the ankyrin and SOCS box protein, ASB9, binds to creatine kinase.

Balasubramaniam D, Schiffer J, Parnell J, Mir SP, Amaro RE, Komives EA.

Biochemistry. 2015 Mar 3;54(8):1673-80. doi: 10.1021/bi501420n. Epub 2015 Feb 17.

35.

Frustration in biomolecules.

Ferreiro DU, Komives EA, Wolynes PG.

Q Rev Biophys. 2014 Nov;47(4):285-363. doi: 10.1017/S0033583514000092. Epub 2014 Sep 16. Review.

36.

Trypsinogen activation as observed in accelerated molecular dynamics simulations.

Boechi L, Pierce L, Komives EA, McCammon JA.

Protein Sci. 2014 Nov;23(11):1550-8. doi: 10.1002/pro.2532. Epub 2014 Aug 23.

37.

Purification and characterization of the Staphylococcus aureus bacillithiol transferase BstA.

Perera VR, Newton GL, Parnell JM, Komives EA, Pogliano K.

Biochim Biophys Acta. 2014 Sep;1840(9):2851-61. doi: 10.1016/j.bbagen.2014.05.001. Epub 2014 May 10.

38.

The phylogenetics of dynamics in DNA clamp proteins.

Balasubramaniam D, Komives EA.

Structure. 2014 Apr 8;22(4):511-2. doi: 10.1016/j.str.2014.03.006.

39.

Predicted disorder-to-order transition mutations in IκBα disrupt function.

Dembinski H, Wismer K, Balasubramaniam D, Gonzalez HA, Alverdi V, Iakoucheva LM, Komives EA.

Phys Chem Chem Phys. 2014 Apr 14;16(14):6480-5. doi: 10.1039/c3cp54427c. Epub 2014 Mar 6.

40.

Expanding proteome coverage with orthogonal-specificity α-lytic proteases.

Meyer JG, Kim S, Maltby DA, Ghassemian M, Bandeira N, Komives EA.

Mol Cell Proteomics. 2014 Mar;13(3):823-35. doi: 10.1074/mcp.M113.034710. Epub 2014 Jan 14.

41.

Direct observation of a transient ternary complex during IκBα-mediated dissociation of NF-κB from DNA.

Alverdi V, Hetrick B, Joseph S, Komives EA.

Proc Natl Acad Sci U S A. 2014 Jan 7;111(1):225-30. doi: 10.1073/pnas.1318115111. Epub 2013 Dec 23.

42.

Identification of methyllysine peptides binding to chromobox protein homolog 6 chromodomain in the human proteome.

Li N, Stein RS, He W, Komives E, Wang W.

Mol Cell Proteomics. 2013 Oct;12(10):2750-60. doi: 10.1074/mcp.O112.025015. Epub 2013 Jul 10.

43.

Observation of solvent penetration during cold denaturation of E. coli phosphofructokinase-2.

Ramírez-Sarmiento CA, Baez M, Wilson CA, Babul J, Komives EA, Guixé V.

Biophys J. 2013 May 21;104(10):2254-63. doi: 10.1016/j.bpj.2013.04.024.

44.

Correlated motions and residual frustration in thrombin.

Fuglestad B, Gasper PM, McCammon JA, Markwick PR, Komives EA.

J Phys Chem B. 2013 Oct 24;117(42):12857-63. doi: 10.1021/jp402107u. Epub 2013 May 28.

45.

Single-molecule FRET reveals the native-state dynamics of the IκBα ankyrin repeat domain.

Lamboy JA, Kim H, Dembinski H, Ha T, Komives EA.

J Mol Biol. 2013 Jul 24;425(14):2578-90. doi: 10.1016/j.jmb.2013.04.015. Epub 2013 Apr 22.

46.

Recognition of methylated peptides by Drosophila melanogaster polycomb chromodomain.

Stein RS, Li N, He W, Komives E, Wang W.

J Proteome Res. 2013 Mar 1;12(3):1467-77. doi: 10.1021/pr3011205. Epub 2013 Feb 4.

47.

Long-range effects and functional consequences of stabilizing mutations in the ankyrin repeat domain of IκBα.

Cervantes CF, Handley LD, Sue SC, Dyson HJ, Komives EA.

J Mol Biol. 2013 Mar 11;425(5):902-13. doi: 10.1016/j.jmb.2012.12.012. Epub 2012 Dec 26.

48.

Discrete kinetic models from funneled energy landscape simulations.

Schafer NP, Hoffman RM, Burger A, Craig PO, Komives EA, Wolynes PG.

PLoS One. 2012;7(12):e50635. doi: 10.1371/journal.pone.0050635. Epub 2012 Dec 12. Erratum in: PLoS One. 2013;8(5). doi:10.1371/annotation/16c11a12-4245-403c-80ab-e6662baf16cd.

49.

Allosteric networks in thrombin distinguish procoagulant vs. anticoagulant activities.

Gasper PM, Fuglestad B, Komives EA, Markwick PR, McCammon JA.

Proc Natl Acad Sci U S A. 2012 Dec 26;109(52):21216-22. doi: 10.1073/pnas.1218414109. Epub 2012 Nov 28.

50.

Hydrogen-exchange mass spectrometry for the study of intrinsic disorder in proteins.

Balasubramaniam D, Komives EA.

Biochim Biophys Acta. 2013 Jun;1834(6):1202-9. doi: 10.1016/j.bbapap.2012.10.009. Epub 2012 Oct 22. Review.

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