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Items: 39

1.

Permeability barriers of Gram-negative pathogens.

Zgurskaya HI, Rybenkov VV.

Ann N Y Acad Sci. 2019 Jun 4. doi: 10.1111/nyas.14134. [Epub ahead of print] Review.

PMID:
31165502
2.

Segregation but Not Replication of the Pseudomonas aeruginosa Chromosome Terminates at Dif.

Bhowmik BK, Clevenger AL, Zhao H, Rybenkov VV.

MBio. 2018 Oct 23;9(5). pii: e01088-18. doi: 10.1128/mBio.01088-18.

3.

Small Molecule Condensin Inhibitors.

Zhao H, Petrushenko ZM, Walker JK, Baudry J, Zgurskaya HI, Rybenkov VV.

ACS Infect Dis. 2018 Dec 14;4(12):1737-1745. doi: 10.1021/acsinfecdis.8b00222. Epub 2018 Oct 22.

PMID:
30346684
4.

Molecular Properties That Define the Activities of Antibiotics in Escherichia coli and Pseudomonas aeruginosa.

Cooper SJ, Krishnamoorthy G, Wolloscheck D, Walker JK, Rybenkov VV, Parks JM, Zgurskaya HI.

ACS Infect Dis. 2018 Aug 10;4(8):1223-1234. doi: 10.1021/acsinfecdis.8b00036. Epub 2018 May 25.

PMID:
29756762
5.

Trans-envelope multidrug efflux pumps of Gram-negative bacteria and their synergism with the outer membrane barrier.

Zgurskaya HI, Rybenkov VV, Krishnamoorthy G, Leus IV.

Res Microbiol. 2018 Sep - Oct;169(7-8):351-356. doi: 10.1016/j.resmic.2018.02.002. Epub 2018 Feb 16. Review.

PMID:
29454787
6.

Synergy between Active Efflux and Outer Membrane Diffusion Defines Rules of Antibiotic Permeation into Gram-Negative Bacteria.

Krishnamoorthy G, Leus IV, Weeks JW, Wolloscheck D, Rybenkov VV, Zgurskaya HI.

MBio. 2017 Oct 31;8(5). pii: e01172-17. doi: 10.1128/mBio.01172-17.

7.

Bifurcation kinetics of drug uptake by Gram-negative bacteria.

Westfall DA, Krishnamoorthy G, Wolloscheck D, Sarkar R, Zgurskaya HI, Rybenkov VV.

PLoS One. 2017 Sep 19;12(9):e0184671. doi: 10.1371/journal.pone.0184671. eCollection 2017.

8.

Exploring Condensins with Magnetic Tweezers.

Sarkar R, Rybenkov VV.

Methods Mol Biol. 2017;1624:161-171. doi: 10.1007/978-1-4939-7098-8_13.

PMID:
28842883
9.

Biochemical Analysis of Bacterial Condensins.

Petrushenko ZM, Rybenkov VV.

Methods Mol Biol. 2017;1624:145-159. doi: 10.1007/978-1-4939-7098-8_12.

PMID:
28842882
10.

Identification and Structure-Activity Relationships of Novel Compounds that Potentiate the Activities of Antibiotics in Escherichia coli.

Haynes KM, Abdali N, Jhawar V, Zgurskaya HI, Parks JM, Green AT, Baudry J, Rybenkov VV, Smith JC, Walker JK.

J Med Chem. 2017 Jul 27;60(14):6205-6219. doi: 10.1021/acs.jmedchem.7b00453. Epub 2017 Jul 11.

11.

Reviving Antibiotics: Efflux Pump Inhibitors That Interact with AcrA, a Membrane Fusion Protein of the AcrAB-TolC Multidrug Efflux Pump.

Abdali N, Parks JM, Haynes KM, Chaney JL, Green AT, Wolloscheck D, Walker JK, Rybenkov VV, Baudry J, Smith JC, Zgurskaya HI.

ACS Infect Dis. 2017 Jan 13;3(1):89-98. doi: 10.1021/acsinfecdis.6b00167. Epub 2016 Nov 2.

12.

Breaking the Permeability Barrier of Escherichia coli by Controlled Hyperporination of the Outer Membrane.

Krishnamoorthy G, Wolloscheck D, Weeks JW, Croft C, Rybenkov VV, Zgurskaya HI.

Antimicrob Agents Chemother. 2016 Nov 21;60(12):7372-7381. Print 2016 Dec.

13.

Pseudomonas aeruginosa Condensins Support Opposite Differentiation States.

Zhao H, Clevenger AL, Ritchey JW, Zgurskaya HI, Rybenkov VV.

J Bacteriol. 2016 Oct 7;198(21):2936-2944. Print 2016 Nov 1.

14.

When Maxwellian demon meets action at a distance: Comment on "Disentangling DNA molecules" by Alexander Vologodskii.

Rybenkov VV.

Phys Life Rev. 2016 Sep;18:150-153. doi: 10.1016/j.plrev.2016.06.010. Epub 2016 Jun 23. No abstract available.

PMID:
27372001
15.

Novobiocin Susceptibility of MukBEF-Deficient Escherichia coli Is Combinatorial with Efflux and Resides in DNA Topoisomerases.

Petrushenko ZM, Zhao H, Zgurskaya HI, Rybenkov VV.

Antimicrob Agents Chemother. 2016 Apr 22;60(5):2949-53. doi: 10.1128/AAC.03102-15. Print 2016 May.

16.

Maintenance of chromosome structure in Pseudomonas aeruginosa.

Rybenkov VV.

FEMS Microbiol Lett. 2014 Jul;356(2):154-65. doi: 10.1111/1574-6968.12478. Epub 2014 Jun 12. Review.

17.

Transient growth arrest in Escherichia coli induced by chromosome condensation.

Edwards AL, Sangurdekar DP, Jeong KS, Khodursky AB, Rybenkov VV.

PLoS One. 2013 Dec 23;8(12):e84027. doi: 10.1371/journal.pone.0084027. eCollection 2013.

18.

MukBEF, a chromosomal organizer.

Rybenkov VV, Herrera V, Petrushenko ZM, Zhao H.

J Mol Microbiol Biotechnol. 2014;24(5-6):371-83. doi: 10.1159/000369099. Epub 2015 Feb 17. Review.

19.

Mutational analysis of MukE reveals its role in focal subcellular localization of MukBEF.

She W, Mordukhova E, Zhao H, Petrushenko ZM, Rybenkov VV.

Mol Microbiol. 2013 Feb;87(3):539-52. doi: 10.1111/mmi.12112. Epub 2012 Dec 11.

20.

Parallel lipoplex folding pathways revealed using magnetic tweezers.

Sun Z, Tikhonova EB, Zgurskaya HI, Rybenkov VV.

Biomacromolecules. 2012 Oct 8;13(10):3395-400. doi: 10.1021/bm301155w. Epub 2012 Sep 28.

21.

A new family of bacterial condensins.

Petrushenko ZM, She W, Rybenkov VV.

Mol Microbiol. 2011 Aug;81(4):881-96. doi: 10.1111/j.1365-2958.2011.07763.x. Epub 2011 Jul 18.

22.

Simulation of DNA catenanes.

Vologodskii A, Rybenkov VV.

Phys Chem Chem Phys. 2009 Dec 7;11(45):10543-52. doi: 10.1039/b910812b. Epub 2009 Oct 23. Review.

23.

Mechanics of DNA bridging by bacterial condensin MukBEF in vitro and in singulo.

Petrushenko ZM, Cui Y, She W, Rybenkov VV.

EMBO J. 2010 Mar 17;29(6):1126-35. doi: 10.1038/emboj.2009.414. Epub 2010 Jan 14.

24.

Kinetic control of TolC recruitment by multidrug efflux complexes.

Tikhonova EB, Dastidar V, Rybenkov VV, Zgurskaya HI.

Proc Natl Acad Sci U S A. 2009 Sep 22;106(38):16416-21. doi: 10.1073/pnas.0906601106. Epub 2009 Sep 2.

25.

Towards the architecture of the chromosomal architects.

Rybenkov VV.

Nat Struct Mol Biol. 2009 Feb;16(2):104-5. doi: 10.1038/nsmb0209-104. No abstract available.

PMID:
19190662
26.

MukB acts as a macromolecular clamp in DNA condensation.

Cui Y, Petrushenko ZM, Rybenkov VV.

Nat Struct Mol Biol. 2008 Apr;15(4):411-8. doi: 10.1038/nsmb.1410. Epub 2008 Mar 30.

PMID:
18376412
27.

MukEF Is required for stable association of MukB with the chromosome.

She W, Wang Q, Mordukhova EA, Rybenkov VV.

J Bacteriol. 2007 Oct;189(19):7062-8. Epub 2007 Jul 20.

28.

Antagonistic interactions of kleisins and DNA with bacterial Condensin MukB.

Petrushenko ZM, Lai CH, Rybenkov VV.

J Biol Chem. 2006 Nov 10;281(45):34208-17. Epub 2006 Sep 18.

29.

Chromosome condensation in the absence of the non-SMC subunits of MukBEF.

Wang Q, Mordukhova EA, Edwards AL, Rybenkov VV.

J Bacteriol. 2006 Jun;188(12):4431-41.

30.

DNA reshaping by MukB. Right-handed knotting, left-handed supercoiling.

Petrushenko ZM, Lai CH, Rai R, Rybenkov VV.

J Biol Chem. 2006 Feb 24;281(8):4606-15. Epub 2005 Dec 20.

31.

The mechanism of type IA topoisomerases.

Dekker NH, Rybenkov VV, Duguet M, Crisona NJ, Cozzarelli NR, Bensimon D, Croquette V.

Proc Natl Acad Sci U S A. 2002 Sep 17;99(19):12126-31. Epub 2002 Aug 7.

32.

Mechanism of topology simplification by type II DNA topoisomerases.

Vologodskii AV, Zhang W, Rybenkov VV, Podtelezhnikov AA, Subramanian D, Griffith JD, Cozzarelli NR.

Proc Natl Acad Sci U S A. 2001 Mar 13;98(6):3045-9.

33.

13S condensin actively reconfigures DNA by introducing global positive writhe: implications for chromosome condensation.

Kimura K, Rybenkov VV, Crisona NJ, Hirano T, Cozzarelli NR.

Cell. 1999 Jul 23;98(2):239-48.

34.

Simplification of DNA topology below equilibrium values by type II topoisomerases.

Rybenkov VV, Ullsperger C, Vologodskii AV, Cozzarelli NR.

Science. 1997 Aug 1;277(5326):690-3.

35.

The effect of ionic conditions on DNA helical repeat, effective diameter and free energy of supercoiling.

Rybenkov VV, Vologodskii AV, Cozzarelli NR.

Nucleic Acids Res. 1997 Apr 1;25(7):1412-8.

36.

The effect of ionic conditions on the conformations of supercoiled DNA. II. Equilibrium catenation.

Rybenkov VV, Vologodskii AV, Cozzarelli NR.

J Mol Biol. 1997 Mar 28;267(2):312-23.

PMID:
9096228
37.

The effect of ionic conditions on the conformations of supercoiled DNA. I. Sedimentation analysis.

Rybenkov VV, Vologodskii AV, Cozzarelli NR.

J Mol Biol. 1997 Mar 28;267(2):299-311.

PMID:
9096227
38.

Probability of DNA knotting and the effective diameter of the DNA double helix.

Rybenkov VV, Cozzarelli NR, Vologodskii AV.

Proc Natl Acad Sci U S A. 1993 Jun 1;90(11):5307-11.

39.

[Effective diameter of DNA].

Rybenkov VV, Vologodskiń≠ AV.

Mol Biol (Mosk). 1992 Nov-Dec;26(6):1433-9. Review. Russian.

PMID:
1491684

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