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Items: 1 to 50 of 71

1.

Single-stranded regions modulate conformational dynamics and ATPase activity of eIF4A to optimize 5'-UTR unwinding.

Andreou AZ, Harms U, Klostermeier D.

Nucleic Acids Res. 2019 Jun 4;47(10):5260-5275. doi: 10.1093/nar/gkz254.

2.

Gyrase containing a single C-terminal domain catalyzes negative supercoiling of DNA by decreasing the linking number in steps of two.

Stelljes JT, Weidlich D, Gubaev A, Klostermeier D.

Nucleic Acids Res. 2018 Jul 27;46(13):6773-6784. doi: 10.1093/nar/gky470.

3.

Why Two? On the Role of (A-)Symmetry in Negative Supercoiling of DNA by Gyrase.

Klostermeier D.

Int J Mol Sci. 2018 May 16;19(5). pii: E1489. doi: 10.3390/ijms19051489. Review.

4.

Binding and Hydrolysis of a Single ATP Is Sufficient for N-Gate Closure and DNA Supercoiling by Gyrase.

Hartmann S, Gubaev A, Klostermeier D.

J Mol Biol. 2017 Nov 24;429(23):3717-3729. doi: 10.1016/j.jmb.2017.10.005. Epub 2017 Oct 12.

PMID:
29032205
5.

Allosteric regulation of helicase core activities of the DEAD-box helicase YxiN by RNA binding to its RNA recognition motif.

Samatanga B, Andreou AZ, Klostermeier D.

Nucleic Acids Res. 2017 Feb 28;45(4):1994-2006. doi: 10.1093/nar/gkx014.

6.

eIF4B stimulates eIF4A ATPase and unwinding activities by direct interaction through its 7-repeats region.

Andreou AZ, Harms U, Klostermeier D.

RNA Biol. 2017 Jan 2;14(1):113-123. doi: 10.1080/15476286.2016.1259782. Epub 2016 Nov 18.

7.

Single-Molecule Confocal FRET Microscopy to Dissect Conformational Changes in the Catalytic Cycle of DNA Topoisomerases.

Hartmann S, Weidlich D, Klostermeier D.

Methods Enzymol. 2016;581:317-351. doi: 10.1016/bs.mie.2016.08.013. Epub 2016 Oct 14.

PMID:
27793284
8.

DNA gyrase with a single catalytic tyrosine can catalyze DNA supercoiling by a nicking-closing mechanism.

Gubaev A, Weidlich D, Klostermeier D.

Nucleic Acids Res. 2016 Dec 1;44(21):10354-10366. Epub 2016 Aug 23.

9.

Protein cofactor competition regulates the action of a multifunctional RNA helicase in different pathways.

Heininger AU, Hackert P, Andreou AZ, Boon KL, Memet I, Prior M, Clancy A, Schmidt B, Urlaub H, Schleiff E, Sloan KE, Deckers M, Lührmann R, Enderlein J, Klostermeier D, Rehling P, Bohnsack MT.

RNA Biol. 2016;13(3):320-30. doi: 10.1080/15476286.2016.1142038. Epub 2016 Jan 29.

10.

Nickel quercetinase, a "promiscuous" metalloenzyme: metal incorporation and metal ligand substitution studies.

Nianios D, Thierbach S, Steimer L, Lulchev P, Klostermeier D, Fetzner S.

BMC Biochem. 2015 Apr 23;16:10. doi: 10.1186/s12858-015-0039-4.

11.
12.
13.

Fluorescence methods in the investigation of the DEAD-box helicase mechanism.

Andreou AZ, Klostermeier D.

Exp Suppl. 2014;105:161-92. doi: 10.1007/978-3-0348-0856-9_8. Review.

PMID:
25095995
14.

Reverse gyrase--recent advances and current mechanistic understanding of positive DNA supercoiling.

Lulchev P, Klostermeier D.

Nucleic Acids Res. 2014 Jul;42(13):8200-13. doi: 10.1093/nar/gku589. Epub 2014 Jul 10. Review.

15.

Reprint of "The mechanism of negative DNA supercoiling: a cascade of DNA-induced conformational changes prepares gyrase for strand passage".

Gubaev A, Klostermeier D.

DNA Repair (Amst). 2014 Aug;20:130-141. doi: 10.1016/j.dnarep.2014.06.006. Epub 2014 Jun 25.

PMID:
24974097
16.

eIF4B, eIF4G and RNA regulate eIF4A activity in translation initiation by modulating the eIF4A conformational cycle.

Harms U, Andreou AZ, Gubaev A, Klostermeier D.

Nucleic Acids Res. 2014 Jul;42(12):7911-22. doi: 10.1093/nar/gku440. Epub 2014 May 21.

17.

The mechanism of negative DNA supercoiling: a cascade of DNA-induced conformational changes prepares gyrase for strand passage.

Gubaev A, Klostermeier D.

DNA Repair (Amst). 2014 Apr;16:23-34. doi: 10.1016/j.dnarep.2014.01.011. Epub 2014 Feb 22. Review.

PMID:
24674625
18.

The acidic C-terminal tail of the GyrA subunit moderates the DNA supercoiling activity of Bacillus subtilis gyrase.

Lanz MA, Farhat M, Klostermeier D.

J Biol Chem. 2014 May 2;289(18):12275-85. doi: 10.1074/jbc.M114.547745. Epub 2014 Feb 20.

19.

eIF4B and eIF4G jointly stimulate eIF4A ATPase and unwinding activities by modulation of the eIF4A conformational cycle.

Andreou AZ, Klostermeier D.

J Mol Biol. 2014 Jan 9;426(1):51-61. doi: 10.1016/j.jmb.2013.09.027. Epub 2013 Sep 27.

PMID:
24080224
20.

Differential contributions of the latch in Thermotoga maritima reverse gyrase to the binding of single-stranded DNA before and after ATP hydrolysis.

Del Toro Duany Y, Ganguly A, Klostermeier D.

Biol Chem. 2014 Jan;395(1):83-93. doi: 10.1515/hsz-2013-0177.

PMID:
23959663
21.
22.

Recognition of two distinct elements in the RNA substrate by the RNA-binding domain of the T. thermophilus DEAD box helicase Hera.

Steimer L, Wurm JP, Linden MH, Rudolph MG, Wöhnert J, Klostermeier D.

Nucleic Acids Res. 2013 Jul;41(12):6259-72. doi: 10.1093/nar/gkt323. Epub 2013 Apr 25.

23.

Mapping the spectrum of conformational states of the DNA- and C-gates in Bacillus subtilis gyrase.

Rudolph MG, Klostermeier D.

J Mol Biol. 2013 Aug 9;425(15):2632-40. doi: 10.1016/j.jmb.2013.04.010. Epub 2013 Apr 16.

PMID:
23602808
24.

Lifelong companions: RNA helicases and their roles in RNA metabolism.

Klostermeier D.

RNA Biol. 2013 Jan;10(1):2-3. doi: 10.4161/rna.23500. Epub 2013 Jan 1.

25.

Crystal structures of Thermotoga maritima reverse gyrase: inferences for the mechanism of positive DNA supercoiling.

Rudolph MG, del Toro Duany Y, Jungblut SP, Ganguly A, Klostermeier D.

Nucleic Acids Res. 2013 Jan;41(2):1058-70. doi: 10.1093/nar/gks1073. Epub 2012 Dec 2.

26.

Reverse gyrase transiently unwinds double-stranded DNA in an ATP-dependent reaction.

Ganguly A, del Toro Duany Y, Klostermeier D.

J Mol Biol. 2013 Jan 9;425(1):32-40. doi: 10.1016/j.jmb.2012.10.016. Epub 2012 Nov 1.

PMID:
23123378
27.

The DEAD-box helicase eIF4A: paradigm or the odd one out?

Andreou AZ, Klostermeier D.

RNA Biol. 2013 Jan;10(1):19-32. doi: 10.4161/rna.21966. Epub 2012 Sep 20. Review.

28.

The GyrA-box determines the geometry of DNA bound to gyrase and couples DNA binding to the nucleotide cycle.

Lanz MA, Klostermeier D.

Nucleic Acids Res. 2012 Nov;40(21):10893-903. doi: 10.1093/nar/gks852. Epub 2012 Sep 12.

29.

Conformational changes of DEAD-box helicases monitored by single molecule fluorescence resonance energy transfer.

Andreou AZ, Klostermeier D.

Methods Enzymol. 2012;511:75-109. doi: 10.1016/B978-0-12-396546-2.00004-8.

PMID:
22713316
30.

RNA helicases in infection and disease.

Steimer L, Klostermeier D.

RNA Biol. 2012 Jun;9(6):751-71. doi: 10.4161/rna.20090. Epub 2012 Jun 1. Review.

PMID:
22699555
31.

Potassium ions are required for nucleotide-induced closure of gyrase N-gate.

Gubaev A, Klostermeier D.

J Biol Chem. 2012 Mar 30;287(14):10916-21. doi: 10.1074/jbc.M111.308247. Epub 2012 Feb 16.

32.

Guiding strand passage: DNA-induced movement of the gyrase C-terminal domains defines an early step in the supercoiling cycle.

Lanz MA, Klostermeier D.

Nucleic Acids Res. 2011 Dec;39(22):9681-94. doi: 10.1093/nar/gkr680. Epub 2011 Aug 31.

33.

DNA-induced narrowing of the gyrase N-gate coordinates T-segment capture and strand passage.

Gubaev A, Klostermeier D.

Proc Natl Acad Sci U S A. 2011 Aug 23;108(34):14085-90. doi: 10.1073/pnas.1102100108. Epub 2011 Aug 4.

34.

Regulatory RNAs and beyond.

Hammann C, Hartmann RK, Helm M, Klostermeier D, Marchfelder A, Suess B, Vörtler S.

EMBO Rep. 2011 Jul 15;12(8):751-3. doi: 10.1038/embor.2011.150.

35.

The conformational flexibility of the helicase-like domain from Thermotoga maritima reverse gyrase is restricted by the topoisomerase domain.

del Toro Duany Y, Klostermeier D, Rudolph MG.

Biochemistry. 2011 Jul 5;50(26):5816-23. doi: 10.1021/bi200236a. Epub 2011 Jun 10.

PMID:
21627332
36.
37.

Changing nucleotide specificity of the DEAD-box helicase Hera abrogates communication between the Q-motif and the P-loop.

Strohmeier J, Hertel I, Diederichsen U, Rudolph MG, Klostermeier D.

Biol Chem. 2011 Apr;392(4):357-69. doi: 10.1515/BC.2011.034.

PMID:
21391900
38.

Highlight: Mechanisms of RNA-mediated regulation.

Klostermeier D.

Biol Chem. 2011 Apr;392(4):275. doi: 10.1515/BC.2011.047. No abstract available.

PMID:
21391899
39.

Nucleotide-driven conformational changes in the reverse gyrase helicase-like domain couple the nucleotide cycle to DNA processing.

del Toro Duany Y, Klostermeier D.

Phys Chem Chem Phys. 2011 Jun 7;13(21):10009-19. doi: 10.1039/c0cp02859b. Epub 2011 Feb 24.

PMID:
21350762
40.

eIF4G stimulates the activity of the DEAD box protein eIF4A by a conformational guidance mechanism.

Hilbert M, Kebbel F, Gubaev A, Klostermeier D.

Nucleic Acids Res. 2011 Mar;39(6):2260-70. doi: 10.1093/nar/gkq1127. Epub 2010 Nov 9.

41.

The latch modulates nucleotide and DNA binding to the helicase-like domain of Thermotoga maritima reverse gyrase and is required for positive DNA supercoiling.

Ganguly A, Del Toro Duany Y, Rudolph MG, Klostermeier D.

Nucleic Acids Res. 2011 Mar;39(5):1789-800. doi: 10.1093/nar/gkq1048. Epub 2010 Nov 4.

42.

A structural model for the DEAD box helicase YxiN in solution: localization of the RNA binding domain.

Karow AR, Klostermeier D.

J Mol Biol. 2010 Oct 1;402(4):629-37. doi: 10.1016/j.jmb.2010.07.049. Epub 2010 Aug 5.

PMID:
20691700
43.

The DEAD box helicase YxiN maintains a closed conformation during ATP hydrolysis.

Aregger R, Klostermeier D.

Biochemistry. 2009 Nov 17;48(45):10679-81. doi: 10.1021/bi901278p.

PMID:
19839642
44.

The mechanism of ATP-dependent RNA unwinding by DEAD box proteins.

Hilbert M, Karow AR, Klostermeier D.

Biol Chem. 2009 Dec;390(12):1237-50. doi: 10.1515/BC.2009.135. Review.

PMID:
19747077
45.

The Thermus thermophilus DEAD box helicase Hera contains a modified RNA recognition motif domain loosely connected to the helicase core.

Rudolph MG, Klostermeier D.

RNA. 2009 Nov;15(11):1993-2001. doi: 10.1261/rna.1820009. Epub 2009 Aug 26.

46.

The DNA-gate of Bacillus subtilis gyrase is predominantly in the closed conformation during the DNA supercoiling reaction.

Gubaev A, Hilbert M, Klostermeier D.

Proc Natl Acad Sci U S A. 2009 Aug 11;106(32):13278-83. doi: 10.1073/pnas.0902493106. Epub 2009 Jul 29.

47.

A conformational change in the helicase core is necessary but not sufficient for RNA unwinding by the DEAD box helicase YxiN.

Karow AR, Klostermeier D.

Nucleic Acids Res. 2009 Jul;37(13):4464-71. doi: 10.1093/nar/gkp397. Epub 2009 May 27.

48.

Crystallization and preliminary characterization of the Thermus thermophilus RNA helicase Hera C-terminal domain.

Rudolph MG, Wittmann JG, Klostermeier D.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2009 Mar 1;65(Pt 3):248-52. doi: 10.1107/S1744309108043145. Epub 2009 Feb 14.

49.

A novel dimerization motif in the C-terminal domain of the Thermus thermophilus DEAD box helicase Hera confers substantial flexibility.

Klostermeier D, Rudolph MG.

Nucleic Acids Res. 2009 Feb;37(2):421-30. doi: 10.1093/nar/gkn947. Epub 2008 Dec 2.

50.

The reverse gyrase helicase-like domain is a nucleotide-dependent switch that is attenuated by the topoisomerase domain.

del Toro Duany Y, Jungblut SP, Schmidt AS, Klostermeier D.

Nucleic Acids Res. 2008 Oct;36(18):5882-95. doi: 10.1093/nar/gkn587. Epub 2008 Sep 16.

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