Publications by authors named "Johannes Rudolph"

42Publications

The secret life of histones.

Science 2020 07;369(6499):33

Department of Biochemistry, University of Colorado at Boulder, Boulder, CO, USA.

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http://dx.doi.org/10.1126/science.abc8242DOI Listing
July 2020

Probing the Conformational Changes Associated with DNA Binding to PARP1.

Biochemistry 2020 Jun 14;59(21):2003-2011. Epub 2020 May 14.

Department of Biochemistry, University of Colorado Boulder, Boulder, Colorado 80309, United States.

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http://dx.doi.org/10.1021/acs.biochem.0c00256DOI Listing
June 2020

Nonspecific Binding of RNA to PARP1 and PARP2 Does Not Lead to Catalytic Activation.

Biochemistry 2019 12 16;58(51):5107-5111. Epub 2019 Dec 16.

Department of Biochemistry , University of Colorado, Boulder , Boulder , Colorado 80309 , United States.

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http://dx.doi.org/10.1021/acs.biochem.9b00986DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7386247PMC
December 2019

Kinetics of DNA-protein association and dissociation by stopped-flow spectroscopy.

Methods Enzymol 2019 17;625:135-156. Epub 2019 May 17.

Department of Biochemistry, University of Colorado Boulder, Boulder, CO, United States; Howard Hughes Medical Institute, University of Colorado Boulder, Boulder, CO, United States.

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http://dx.doi.org/10.1016/bs.mie.2019.04.025DOI Listing
June 2020

Q-FADD: A Mechanistic Approach for Modeling the Accumulation of Proteins at Sites of DNA Damage.

Biophys J 2019 06 3;116(11):2224-2233. Epub 2019 May 3.

Department of Biochemistry; Howard Hughes Medical Institute, University of Colorado Boulder, Boulder, Colorado. Electronic address:

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http://dx.doi.org/10.1016/j.bpj.2019.04.032DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6554667PMC
June 2019

Poly(ADP-ribose) polymerase 1 searches DNA via a 'monkey bar' mechanism.

Elife 2018 08 8;7. Epub 2018 Aug 8.

Department of Chemistry and Biochemistry, University of Colorado Boulder, Boulder, United States.

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http://dx.doi.org/10.7554/eLife.37818DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6135609PMC
August 2018

Investigating the Dynamics of Destabilized Nucleosomes Using Methyl-TROSY NMR.

J Am Chem Soc 2018 04 28;140(14):4774-4777. Epub 2018 Mar 28.

Departments of Chemistry, Molecular Genetics, and Biochemistry , University of Toronto , Toronto , Ontario M5S 1A8 , Canada.

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http://dx.doi.org/10.1021/jacs.8b00931DOI Listing
April 2018

Slow inhibition and conformation selective properties of extracellular signal-regulated kinase 1 and 2 inhibitors.

Biochemistry 2015 Jan 4;54(1):22-31. Epub 2014 Dec 4.

Department of Chemistry and Biochemistry, ‡Howard Hughes Medical Institute, and §BioFrontiers Institute, University of Colorado , Boulder, Colorado 80309, United States.

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http://dx.doi.org/10.1021/bi501101vDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4724192PMC
January 2015

A radical intermediate in the conversion of pentachlorophenol to tetrachlorohydroquinone by Sphingobium chlorophenolicum.

Biochemistry 2014 Oct 6;53(41):6539-49. Epub 2014 Oct 6.

Department of Molecular, Cellular and Developmental Biology and the Cooperative Institute for Research in Environmental Sciences, and ‡Department of Chemistry and Biochemistry, University of Colorado Boulder , Boulder, Colorado 80309, United States.

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http://dx.doi.org/10.1021/bi5010427DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4204890PMC
October 2014

Sequestration of a highly reactive intermediate in an evolving pathway for degradation of pentachlorophenol.

Proc Natl Acad Sci U S A 2013 Jun 15;110(24):E2182-90. Epub 2013 May 15.

Department of Molecular, Cellular and Developmental Biology and Cooperative Institute for Research in Environmental Sciences, University of Colorado, Boulder, CO 80309, USA.

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http://www.pnas.org/cgi/doi/10.1073/pnas.1214052110
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http://dx.doi.org/10.1073/pnas.1214052110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3683723PMC
June 2013

Pentachlorophenol hydroxylase, a poorly functioning enzyme required for degradation of pentachlorophenol by Sphingobium chlorophenolicum.

Biochemistry 2012 May 27;51(18):3848-60. Epub 2012 Apr 27.

Department of Molecular, Cellular and Developmental Biology, University of Colorado Boulder, Boulder, Colorado 80309, USA.

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http://dx.doi.org/10.1021/bi300261pDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4251658PMC
May 2012

Multiple turnovers of the nicotino-enzyme PdxB require α-keto acids as cosubstrates.

Biochemistry 2010 Nov;49(43):9249-55

Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO 80309, USA

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http://dx.doi.org/10.1021/bi101291dDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3295541PMC
November 2010

Mechanism of Cdc25B phosphatase with the small molecule substrate p-nitrophenyl phosphate from QM/MM-MFEP calculations.

J Phys Chem B 2009 Apr;113(15):5217-24

Department of Chemistry, Duke University, 124 Science Drive, 5301 French Science Center, Durham, North Carolina 27708-0346, USA.

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http://dx.doi.org/10.1021/jp805137xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2712249PMC
April 2009

Redox regulation of SH2-domain-containing protein tyrosine phosphatases by two backdoor cysteines.

Biochemistry 2009 Feb;48(6):1399-409

Department of Biochemistry, Duke University, Durham, North Carolina 27710, USA.

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http://dx.doi.org/10.1021/bi801973zDOI Listing
February 2009

Differential susceptibility of yeast S and M phase CDK complexes to inhibitory tyrosine phosphorylation.

Curr Biol 2007 Jul 5;17(14):1181-9. Epub 2007 Jul 5.

Department of Pharmacology and Cancer Biology, Duke University Medical Center, Durham, NC 27710, USA.

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http://dx.doi.org/10.1016/j.cub.2007.05.075DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2034293PMC
July 2007

Protein-protein interfaces: properties, preferences, and projections.

J Proteome Res 2007 Jul 2;6(7):2576-86. Epub 2007 Jun 2.

Department of Biochemistry, Duke University Medical Center, Durham, North Carolina 27710, USA.

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http://dx.doi.org/10.1021/pr070018+DOI Listing
July 2007

Parallel effects of genetic variation in ACE activity in baboons and humans.

Am J Phys Anthropol 2007 Sep;134(1):1-8

Department of Biology, Duke University, Durham, NC 27708, USA.

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http://dx.doi.org/10.1002/ajpa.20614DOI Listing
September 2007

Cdc25 phosphatases: structure, specificity, and mechanism.

Authors:
Johannes Rudolph

Biochemistry 2007 Mar 1;46(12):3595-604. Epub 2007 Mar 1.

Department of Biochemistry, Duke University Medical Center, Durham, North Carolina 27710, USA.

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http://dx.doi.org/10.1021/bi700026jDOI Listing
March 2007

Inhibiting transient protein-protein interactions: lessons from the Cdc25 protein tyrosine phosphatases.

Authors:
Johannes Rudolph

Nat Rev Cancer 2007 Mar 8;7(3):202-11. Epub 2007 Feb 8.

Department of Biochemistry, Duke University Medical Center, BOX 3813, LSRC Building, Room C125, Durham, North Carolina 27710, USA.

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http://dx.doi.org/10.1038/nrc2087DOI Listing
March 2007

Kinetic and structural studies of specific protein-protein interactions in substrate catalysis by Cdc25B phosphatase.

Biochemistry 2007 Jan;46(3):807-18

Department of Biochemistry, Duke University Medical Center, Durham, North Carolina 27710, USA.

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http://dx.doi.org/10.1021/bi061257yDOI Listing
January 2007

Time-dependent inhibition of isoprenylcysteine carboxyl methyltransferase by indole-based small molecules.

Biochemistry 2007 Jan;46(2):554-60

Department of Pharmacology and Cancer Biology, Duke University Medical Center, Durham, North Carolina 27710-3813, USA.

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http://pubs.acs.org/doi/abs/10.1021/bi060344n
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http://dx.doi.org/10.1021/bi060344nDOI Listing
January 2007

Temperature dependence of binding and catalysis for the Cdc25B phosphatase.

Biophys Chem 2007 Feb 29;125(2-3):549-55. Epub 2006 Nov 29.

Department of Biochemistry and Chemistry, Duke University Medical Center, Durham, NC 27710, USA.

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http://dx.doi.org/10.1016/j.bpc.2006.11.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1849978PMC
February 2007

Redox control of cell cycle progression via Cdc25 phosphatase (Mih1p) in S. cerevisiae.

Cell Cycle 2006 Sep 15;5(18):2172-3. Epub 2006 Sep 15.

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http://dx.doi.org/10.4161/cc.5.18.3252DOI Listing
September 2006

The energetic network of hotspot residues between Cdc25B phosphatase and its protein substrate.

J Mol Biol 2006 Oct 15;362(5):1060-71. Epub 2006 Aug 15.

Department of Biochemistry, Duke University Medical Center, Durham, NC 27710, USA.

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http://dx.doi.org/10.1016/j.jmb.2006.07.090DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1769329PMC
October 2006

Redox regulation of MAP kinase phosphatase 3.

Biochemistry 2006 Jul;45(28):8476-87

Department of Biochemistry, Duke University Medical Center, Durham, North Carolina 27710, USA.

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http://dx.doi.org/10.1021/bi060157pDOI Listing
July 2006

Autophosphorylation of Ser66 on Xenopus Myt1 is a prerequisite for meiotic inactivation of Myt1.

Cell Cycle 2006 Feb 15;5(4):421-7. Epub 2006 Feb 15.

Department of Biochemistry, Duke University Medical Center, Durham, North Carolina 27710, USA.

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http://dx.doi.org/10.4161/cc.5.4.2492DOI Listing
February 2006

Experimental validation of the docking orientation of Cdc25 with its Cdk2-CycA protein substrate.

Biochemistry 2005 Dec;44(50):16563-73

Department of Biochemistry, Duke University Medical Center, Durham, North Carolina 27710, USA.

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http://dx.doi.org/10.1021/bi0516879DOI Listing
December 2005

Evaluating the quality of NMR structures by local density of protons.

Proteins 2006 Mar;62(4):852-64

Department of Biochemistry, Duke University Medical Center, Durham, North Carolina 27710, USA.

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http://dx.doi.org/10.1002/prot.20811DOI Listing
March 2006

Reactivity of Cdc25 phosphatase at low pH and with thiophosphorylated protein substrate.

Authors:
Johannes Rudolph

Bioorg Chem 2005 Aug 22;33(4):264-73. Epub 2005 Feb 22.

Department of Biochemistry, Duke University Medical Center, Durham, NC 27710, USA.

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http://dx.doi.org/10.1016/j.bioorg.2005.01.004DOI Listing
August 2005

Redox regulation of the Cdc25 phosphatases.

Authors:
Johannes Rudolph

Antioxid Redox Signal 2005 May-Jun;7(5-6):761-7

Department of Biochemistry, Duke University Medical Center, Durham, NC 27710, USA.

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http://dx.doi.org/10.1089/ars.2005.7.761DOI Listing
September 2005

Structural mechanism of oxidative regulation of the phosphatase Cdc25B via an intramolecular disulfide bond.

Biochemistry 2005 Apr;44(14):5307-16

Department of Molecular and Structural Biochemistry, 128 Polk Hall, CB 7622, North Carolina State University, Raleigh, North Carolina 27695, USA.

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http://pubs.acs.org/doi/abs/10.1021/bi047449f
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http://dx.doi.org/10.1021/bi047449fDOI Listing
April 2005

Refined solution structure of the LpxC-TU-514 complex and pKa analysis of an active site histidine: insights into the mechanism and inhibitor design.

Biochemistry 2005 Feb;44(4):1114-26

Department of Biochemistry, Duke University Medical Center, P.O. Box 3711, 242 Nanaline Duke Building, Research Drive, Durham, North Carolina 27710, USA.

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http://dx.doi.org/10.1021/bi047820zDOI Listing
February 2005

Kinetic analysis of the zinc-dependent deacetylase in the lipid A biosynthetic pathway.

Biochemistry 2005 Feb;44(4):1106-13

Department of Biochemistry, Duke University Medical Center, P.O. Box 3813, Durham, North Carolina 27710, USA.

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http://dx.doi.org/10.1021/bi048001hDOI Listing
February 2005

Targeting the neighbor's pool.

Authors:
Johannes Rudolph

Mol Pharmacol 2004 Oct 16;66(4):780-2. Epub 2004 Jul 16.

Department of Biochemistry, LSRC Bldg, Rm. C125, Duke University Medical Center, Box 3813, Durham, NC 27710, USA.

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http://dx.doi.org/10.1124/mol.104.004788DOI Listing
October 2004

Kinetic mechanism of quinone oxidoreductase 2 and its inhibition by the antimalarial quinolines.

Biochemistry 2004 Apr;43(15):4538-47

Department of Pharmacology and Cancer Biology, Duke University, Durham, North Carolina 27710, USA.

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http://dx.doi.org/10.1021/bi035923wDOI Listing
April 2004

Catalytic and chemical competence of regulation of cdc25 phosphatase by oxidation/reduction.

Biochemistry 2003 Sep;42(34):10060-70

Department of Biochemistry, Duke University Medical Center, Durham, North Carolina 27710, USA.

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http://dx.doi.org/10.1021/bi0345081DOI Listing
September 2003

Inhibition of Cdc25 phosphatases by indolyldihydroxyquinones.

J Med Chem 2003 Jun;46(13):2580-8

Department of Biochemistry, Duke University, and Duke University Medical Center, Durham, North Carolina 27710, USA.

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http://dx.doi.org/10.1021/jm0300835DOI Listing
June 2003

A fluorescence polarization assay for native protein substrates of kinases.

Anal Biochem 2003 May;316(1):41-9

Department of Biochemistry, Duke University Medical Center, Durham, NC 27710, USA.

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http://dx.doi.org/10.1016/s0003-2697(03)00033-2DOI Listing
May 2003

Facile variation of reagent concentrations in rapid quench enzymology.

Anal Biochem 2003 Jan;312(1):80-3

Departments of Biochemistry and Chemistry, Duke University Medical Center, Box 3813, Durham, NC 27710, USA.

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http://dx.doi.org/10.1016/s0003-2697(02)00463-3DOI Listing
January 2003

Catalytic mechanism of Cdc25.

Authors:
Johannes Rudolph

Biochemistry 2002 Dec;41(49):14613-23

Department of Biochemistry, Duke University Medical Center, Durham, North Carolina 27710, USA.

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http://dx.doi.org/10.1021/bi0263513DOI Listing
December 2002