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Items: 1 to 20 of 63


A model for genesis of transcription systems.

Burton ZF, Opron K, Wei G, Geiger JH.

Transcription. 2016;7(1):1-13. doi: 10.1080/21541264.2015.1128518.


Five checkpoints maintaining the fidelity of transcription by RNA polymerases in structural and energetic details.

Wang B, Opron K, Burton ZF, Cukier RI, Feig M.

Nucleic Acids Res. 2015 Jan;43(2):1133-46. doi: 10.1093/nar/gku1370. Epub 2014 Dec 30.


The σ enigma: bacterial σ factors, archaeal TFB and eukaryotic TFIIB are homologs.

Burton SP, Burton ZF.

Transcription. 2014;5(4):e967599. doi: 10.4161/21541264.2014.967599.


RNA polymerase structure, function, regulation, dynamics, fidelity, and roles in gene expression.

Kireeva ML, Kashlev M, Burton ZF.

Chem Rev. 2013 Nov 13;113(11):8325-30. doi: 10.1021/cr400436m. No abstract available.


Computational simulation strategies for analysis of multisubunit RNA polymerases.

Wang B, Feig M, Cukier RI, Burton ZF.

Chem Rev. 2013 Nov 13;113(11):8546-66. doi: 10.1021/cr400046x. Epub 2013 Aug 29. Review. No abstract available.


Energetic and structural details of the trigger-loop closing transition in RNA polymerase II.

Wang B, Predeus AV, Burton ZF, Feig M.

Biophys J. 2013 Aug 6;105(3):767-75. doi: 10.1016/j.bpj.2013.05.060.


Translocation and fidelity of Escherichia coli RNA polymerase.

Nedialkov YA, Burton ZF.

Transcription. 2013 May-Jun;4(3):136-43. Epub 2013 Jul 11.


The RNA polymerase bridge helix YFI motif in catalysis, fidelity and translocation.

Nedialkov YA, Opron K, Assaf F, Artsimovitch I, Kireeva ML, Kashlev M, Cukier RI, Nudler E, Burton ZF.

Biochim Biophys Acta. 2013 Feb;1829(2):187-98. doi: 10.1016/j.bbagrm.2012.11.005. Epub 2012 Nov 30.


RNA polymerase stalls in a post-translocated register and can hyper-translocate.

Nedialkov YA, Nudler E, Burton ZF.

Transcription. 2012 Sep-Oct;3(5):260-9. doi: 10.4161/trns.22307. Epub 2012 Sep 1.


Molecular dynamics and mutational analysis of the catalytic and translocation cycle of RNA polymerase.

Kireeva ML, Opron K, Seibold SA, Domecq C, Cukier RI, Coulombe B, Kashlev M, Burton ZF.

BMC Biophys. 2012 Jun 7;5:11. doi: 10.1186/2046-1682-5-11.


Interaction of RNA polymerase II fork loop 2 with downstream non-template DNA regulates transcription elongation.

Kireeva ML, Domecq C, Coulombe B, Burton ZF, Kashlev M.

J Biol Chem. 2011 Sep 2;286(35):30898-910. doi: 10.1074/jbc.M111.260844. Epub 2011 Jul 5.


RNA polymerase II with open and closed trigger loops: active site dynamics and nucleic acid translocation.

Feig M, Burton ZF.

Biophys J. 2010 Oct 20;99(8):2577-86. doi: 10.1016/j.bpj.2010.08.010.


Conformational coupling, bridge helix dynamics and active site dehydration in catalysis by RNA polymerase.

Seibold SA, Singh BN, Zhang C, Kireeva M, Domecq C, Bouchard A, Nazione AM, Feig M, Cukier RI, Coulombe B, Kashlev M, Hampsey M, Burton ZF.

Biochim Biophys Acta. 2010 Aug;1799(8):575-87. doi: 10.1016/j.bbagrm.2010.05.002. Epub 2010 May 15.


Translocation by multi-subunit RNA polymerases.

Kireeva M, Kashlev M, Burton ZF.

Biochim Biophys Acta. 2010 May-Jun;1799(5-6):389-401. doi: 10.1016/j.bbagrm.2010.01.007. Epub 2010 Jan 25. Review.


RNA polymerase II flexibility during translocation from normal mode analysis.

Feig M, Burton ZF.

Proteins. 2010 Feb 1;78(2):434-46. doi: 10.1002/prot.22560.


Minimal promoter systems reveal the importance of conserved residues in the B-finger of human transcription factor IIB.

Thompson NE, Glaser BT, Foley KM, Burton ZF, Burgess RR.

J Biol Chem. 2009 Sep 11;284(37):24754-66. doi: 10.1074/jbc.M109.030486. Epub 2009 Jul 9.


Site-directed mutagenesis, purification and assay of Saccharomyces cerevisiae RNA polymerase II.

Domecq C, Kireeva M, Archambault J, Kashlev M, Coulombe B, Burton ZF.

Protein Expr Purif. 2010 Jan;69(1):83-90. doi: 10.1016/j.pep.2009.06.016. Epub 2009 Jun 28.


Millisecond phase kinetic analysis of elongation catalyzed by human, yeast, and Escherichia coli RNA polymerase.

Kireeva M, Nedialkov YA, Gong XQ, Zhang C, Xiong Y, Moon W, Burton ZF, Kashlev M.

Methods. 2009 Aug;48(4):333-45. doi: 10.1016/j.ymeth.2009.04.008. Epub 2009 May 4.

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