Judith P Klinman

Judith P Klinman

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Judith P Klinman

Publications by authors named "Judith P Klinman"

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The Soybean Lipoxygenase-Substrate Complex: Correlation between the Properties of Tunneling-Ready States and ENDOR-Detected Structures of Ground States.

Biochemistry 2020 Feb 5;59(7):901-910. Epub 2020 Feb 5.

Department of Chemistry , Northwestern University , Evanston , Illinois 60208 , United States.

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http://dx.doi.org/10.1021/acs.biochem.9b00861DOI Listing
February 2020

Electron Paramagnetic Resonance Spectroscopic Identification of the Fe-S Clusters in the SPASM Domain-Containing Radical SAM Enzyme PqqE.

Biochemistry 2019 Dec 11;58(51):5173-5187. Epub 2019 Dec 11.

Department of Chemistry , University of California , Davis , California 95616 , United States.

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http://dx.doi.org/10.1021/acs.biochem.9b00960DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6959549PMC
December 2019

Comparative kinetic isotope effects on first- and second-order rate constants of soybean lipoxygenase variants uncover a substrate-binding network.

J Biol Chem 2019 Nov 17;294(48):18069-18076. Epub 2019 Oct 17.

Department of Chemistry, University of California, Berkeley, California 94720

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http://dx.doi.org/10.1074/jbc.RA119.010826DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6885649PMC
November 2019

A two-component protease in with high activity toward the peptide precursor of the redox cofactor pyrroloquinoline quinone.

J Biol Chem 2019 Oct 19;294(41):15025-15036. Epub 2019 Aug 19.

California Institute for Quantitative Biosciences, University of California Berkeley, Berkeley, California 94720

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http://dx.doi.org/10.1074/jbc.RA119.009684DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6791305PMC
October 2019

Moving Through Barriers in Science and Life.

Authors:
Judith P Klinman

Annu Rev Biochem 2019 06;88:1-24

Department of Chemistry, Department of Molecular and Cell Biology, and California Institute of Quantitative Biosciences (QB3), University of California, Berkeley, California 94720, USA; email:

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http://dx.doi.org/10.1146/annurev-biochem-013118-111217DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6956981PMC
June 2019

Methods for Expression, Purification, and Characterization of PqqE, a Radical SAM Enzyme in the PQQ Biosynthetic Pathway.

Methods Enzymol 2018 ;606:389-420

California Institute for Quantitative Biosciences, University of California, Berkeley, CA, United States; Department of Chemistry, University of California, Berkeley, CA, United States; Department of Molecular and Cell Biology, University of California, Berkeley, CA, United States. Electronic address:

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http://dx.doi.org/10.1016/bs.mie.2018.04.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6287933PMC
May 2019

Discovery of Hydroxylase Activity for PqqB Provides a Missing Link in the Pyrroloquinoline Quinone Biosynthetic Pathway.

J Am Chem Soc 2019 Mar 27;141(10):4398-4405. Epub 2019 Feb 27.

Department of Chemistry and California Institute for Quantitative Biosciences , University of California-Berkeley , Berkeley , California 94720-3220 , United States.

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http://dx.doi.org/10.1021/jacs.8b13453DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6944208PMC
March 2019

Understanding Biological Hydrogen Transfer Through the Lens of Temperature Dependent Kinetic Isotope Effects.

Acc Chem Res 2018 09 28;51(9):1966-1974. Epub 2018 Aug 28.

Department of Chemistry, Department of Molecular and Cell Biology and California Institute of Quantitative Biosciences (QB3) , University of California , Berkeley , California 94720 , United States.

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http://dx.doi.org/10.1021/acs.accounts.8b00226DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6258190PMC
September 2018

X-ray and EPR Characterization of the Auxiliary Fe-S Clusters in the Radical SAM Enzyme PqqE.

Biochemistry 2018 02 6;57(8):1306-1315. Epub 2018 Feb 6.

Department of Biochemistry, Albert Einstein School of Medicine , Bronx, New York 10461, United States.

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http://dx.doi.org/10.1021/acs.biochem.7b01097DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5905707PMC
February 2018

Hydrogen-deuterium exchange reveals long-range dynamical allostery in soybean lipoxygenase.

J Biol Chem 2018 01 30;293(4):1138-1148. Epub 2017 Nov 30.

From the Department of Chemistry, California Institute for Quantitative Biosciences (QB3), and

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http://dx.doi.org/10.1074/jbc.M117.817197DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5787793PMC
January 2018

Origins of Enzyme Catalysis: Experimental Findings for C-H Activation, New Models, and Their Relevance to Prevailing Theoretical Constructs.

J Am Chem Soc 2017 12 15;139(51):18409-18427. Epub 2017 Dec 15.

Department of Chemistry, University of California , Berkeley, California 94720, United States.

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http://dx.doi.org/10.1021/jacs.7b08418DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5812730PMC
December 2017

Crystal structures reveal metal-binding plasticity at the metallo-β-lactamase active site of PqqB from Pseudomonas putida.

J Biol Inorg Chem 2017 Oct 19;22(7):1089-1097. Epub 2017 Aug 19.

Department of Biochemistry, Molecular Biology, and Biophysics, and The Biotechnology Institute, University of Minnesota, St Paul, MN, 55108, USA.

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http://link.springer.com/10.1007/s00775-017-1486-8
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http://dx.doi.org/10.1007/s00775-017-1486-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5693720PMC
October 2017

At the confluence of ribosomally synthesized peptide modification and radical -adenosylmethionine (SAM) enzymology.

J Biol Chem 2017 10 22;292(40):16397-16405. Epub 2017 Aug 22.

the California Institute of Quantitative Biosciences, University of California at Berkeley, Berkeley, California 94720

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http://dx.doi.org/10.1074/jbc.R117.797399DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5633103PMC
October 2017

Nuclear Magnetic Resonance Structure and Binding Studies of PqqD, a Chaperone Required in the Biosynthesis of the Bacterial Dehydrogenase Cofactor Pyrroloquinoline Quinone.

Biochemistry 2017 05 12;56(21):2735-2746. Epub 2017 May 12.

Department of Biochemistry, Molecular Biology, and Biophysics and Biotechnology Institute, University of Minnesota, Twin Cities , St. Paul, Minnesota 55108, United States.

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http://dx.doi.org/10.1021/acs.biochem.7b00247DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5526462PMC
May 2017

Enhanced Rigidification within a Double Mutant of Soybean Lipoxygenase Provides Experimental Support for Vibronically Nonadiabatic Proton-Coupled Electron Transfer Models.

ACS Catal 2017 May 20;7(5):3569-3574. Epub 2017 Apr 20.

Department of Chemistry, Department of Molecular and Cell Biology, and California Institute for Quantitative Biosciences, University of California, Berkeley, California 94720, United States.

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http://dx.doi.org/10.1021/acscatal.7b00688DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5724529PMC
May 2017

How Large Should the QM Region Be in QM/MM Calculations? The Case of Catechol O-Methyltransferase.

J Phys Chem B 2016 11 28;120(44):11381-11394. Epub 2016 Oct 28.

Department of Chemistry and PULSE Institute, Stanford University , Stanford, California 94305, United States.

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http://dx.doi.org/10.1021/acs.jpcb.6b07814DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5108028PMC
November 2016

(1)H, (13)C, and (15)N resonance assignments and secondary structure information for Methylobacterium extorquens PqqD and the complex of PqqD with PqqA.

Biomol NMR Assign 2016 10 16;10(2):385-9. Epub 2016 Sep 16.

Department of Biochemistry, Molecular Biology, and Biophysics, University of Minnesota, Twin Cities, Saint Paul, MN, 55108, USA.

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http://dx.doi.org/10.1007/s12104-016-9705-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5224828PMC
October 2016

Synthesis of Site-Specifically C Labeled Linoleic Acids.

Tetrahedron Lett 2016 Oct 22;57(41):4537-4540. Epub 2016 Aug 22.

Department of Chemistry, University of California, Berkeley, Berkeley, California, 94720; Quantitative Institutes of Biosciences, University of California, Berkeley, Berkeley, California, 94720; Department of Molecular and Cellular Biology, University of California, Berkeley, Berkeley, California, 94720.

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http://dx.doi.org/10.1016/j.tetlet.2016.08.071DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5333924PMC
October 2016

Hydrostatic Pressure Studies Distinguish Global from Local Protein Motions in C-H Activation by Soybean Lipoxygenase-1.

Angew Chem Int Ed Engl 2016 08 27;55(32):9361-4. Epub 2016 Jun 27.

Department of Chemistry, University of California, California Institute for Quantitative Biosciences, University of California, Berkeley, CA, 94720, USA.

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http://dx.doi.org/10.1002/anie.201603592DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5040518PMC
August 2016

Convergent Mechanistic Features between the Structurally Diverse N- and O-Methyltransferases: Glycine N-Methyltransferase and Catechol O-Methyltransferase.

J Am Chem Soc 2016 07 18;138(29):9158-65. Epub 2016 Jul 18.

Department of Chemistry, ‡Department of Molecular and Cell Biology, and §California Institute for Quantitative Biosciences, University of California , Berkeley, California 94720, United States.

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http://dx.doi.org/10.1021/jacs.6b03462DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5270642PMC
July 2016

Control of the Position of Oxygen Delivery in Soybean Lipoxygenase-1 by Amino Acid Side Chains within a Gas Migration Channel.

J Biol Chem 2016 Apr 10;291(17):9052-9. Epub 2016 Feb 10.

From the Department of Molecular and Cell Biology, Department of Chemistry, and the California Institute for Quantitative Biosciences (QB3), University of California, Berkeley, California 94720

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http://dx.doi.org/10.1074/jbc.M115.709154DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4861474PMC
April 2016

Demonstration That the Radical S-Adenosylmethionine (SAM) Enzyme PqqE Catalyzes de Novo Carbon-Carbon Cross-linking within a Peptide Substrate PqqA in the Presence of the Peptide Chaperone PqqD.

J Biol Chem 2016 Apr 8;291(17):8877-84. Epub 2016 Mar 8.

From the Department of Chemistry, Department of Molecular and Cell Biology, and California Institute for Quantitative Biosciences, University of California, Berkeley, California 94720

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http://www.jbc.org/lookup/doi/10.1074/jbc.C115.699918
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http://dx.doi.org/10.1074/jbc.C115.699918DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4861456PMC
April 2016

Editorial overview: Catalysis and regulation.

Curr Opin Struct Biol 2015 Dec 10;35:iv-vi. Epub 2015 Nov 10.

Department of Molecular Biosciences, Northwestern University, Evanston, IL, USA; Department of Chemistry, Northwestern University, Evanston, IL, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S0959440X150015
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http://dx.doi.org/10.1016/j.sbi.2015.10.003DOI Listing
December 2015

Kinetic Detection of Orthogonal Protein and Chemical Coordinates in Enzyme Catalysis: Double Mutants of Soybean Lipoxygenase.

Biochemistry 2015 Sep 26;54(35):5447-56. Epub 2015 Aug 26.

Department of Chemistry, ‡Department of Molecular and Cell Biology, and California Institute for Quantitative Biosciences, University of California , Berkeley, California 94720, United States.

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http://dx.doi.org/10.1021/acs.biochem.5b00374DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4565126PMC
September 2015

Irwin Rose (1926-2015).

Authors:
Judith P Klinman

Proc Natl Acad Sci U S A 2015 Aug 27;112(34):10568-9. Epub 2015 Jul 27.

Departments of Chemistry and Molecular and Cell Biology, University of California, Berkeley, CA 94720

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http://dx.doi.org/10.1073/pnas.1512507112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4553760PMC
August 2015

Temperature-Jump Fluorescence Provides Evidence for Fully Reversible Microsecond Dynamics in a Thermophilic Alcohol Dehydrogenase.

J Am Chem Soc 2015 Aug 10;137(32):10060-3. Epub 2015 Aug 10.

∥Department of Chemistry, University of Washington, Seattle, Washington 98195, United States.

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http://dx.doi.org/10.1021/jacs.5b04413DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4970856PMC
August 2015

Oxygen-18 Kinetic Isotope Effects of Nonheme Iron Enzymes HEPD and MPnS Support Iron(III) Superoxide as the Hydrogen Abstraction Species.

J Am Chem Soc 2015 Aug 12;137(33):10448-51. Epub 2015 Aug 12.

Howard Hughes Medical Institute and Department of Chemistry, University of Illinois at Urbana-Champaign , 600 South Mathews Avenue, Urbana, Illinois 61801, United States.

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http://dx.doi.org/10.1021/jacs.5b03907DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4970508PMC
August 2015

Mediation of donor-acceptor distance in an enzymatic methyl transfer reaction.

Proc Natl Acad Sci U S A 2015 Jun 15;112(26):7954-9. Epub 2015 Jun 15.

Department of Chemistry, University of California, Berkeley, CA 94720; California Institute for Quantitative Biosciences, University of California, Berkeley, CA 94720; Department of Molecular and Cell Biology, University of California, Berkeley, CA 94720

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http://dx.doi.org/10.1073/pnas.1506792112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4491759PMC
June 2015

Low Barrier Hydrogen Bonds: Getting Close, but Not Sharing...

Authors:
Judith P Klinman

ACS Cent Sci 2015 Jun 5;1(3):115-6. Epub 2015 Jun 5.

Department of Chemistry, Department of Molecular and Cell Biology, and California Institute for Quantitative Biosciences, University of California , Berkeley, California 94720, United States.

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http://dx.doi.org/10.1021/acscentsci.5b00215DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4827480PMC
June 2015

High-performance liquid chromatography separation of the (S,S)- and (R,S)-forms of S-adenosyl-L-methionine.

Anal Biochem 2015 May 11;476:81-3. Epub 2015 Feb 11.

Department of Chemistry, University of California, Berkeley, Berkeley, CA 94720, USA; California Institute for Quantitative Biosciences, University of California, Berkeley, Berkeley, CA 94720, USA; Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA 94720, USA. Electronic address:

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http://dx.doi.org/10.1016/j.ab.2015.02.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4398633PMC
May 2015

PqqD is a novel peptide chaperone that forms a ternary complex with the radical S-adenosylmethionine protein PqqE in the pyrroloquinoline quinone biosynthetic pathway.

J Biol Chem 2015 May 27;290(20):12908-18. Epub 2015 Mar 27.

From the Departments of Chemistry and Molecular and Cell Biology and California Institute for Quantitative Biosciences, University of California, Berkeley, California 94720

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http://dx.doi.org/10.1074/jbc.M115.646521DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4432305PMC
May 2015

Solvent and Temperature Probes of the Long-Range Electron-Transfer Step in Tyramine β-Monooxygenase: Demonstration of a Long-Range Proton-Coupled Electron-Transfer Mechanism.

J Am Chem Soc 2015 May 28;137(17):5720-9. Epub 2015 Apr 28.

#Department of Chemistry and Biochemistry, California State University, East Bay, 25800 Carlos Bee Boulevard, Hayward, California 94542, United States.

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http://dx.doi.org/10.1021/ja512388nDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4970857PMC
May 2015

Dynamically achieved active site precision in enzyme catalysis.

Authors:
Judith P Klinman

Acc Chem Res 2015 Feb 24;48(2):449-56. Epub 2014 Dec 24.

Department of Chemistry, Department of Molecular and Cell Biology, Institute of Quantitative Biology (QB3), University of California , Berkeley, California 94720, United States.

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http://dx.doi.org/10.1021/ar5003347DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4334267PMC
February 2015

Evolutionary aspects of enzyme dynamics.

J Biol Chem 2014 Oct 10;289(44):30205-12. Epub 2014 Sep 10.

the Department of Chemistry, The University of Iowa, Iowa City, Iowa 52242-1294

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http://dx.doi.org/10.1074/jbc.R114.565515DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4215204PMC
October 2014

Picosecond-resolved fluorescence studies of substrate and cofactor-binding domain mutants in a thermophilic alcohol dehydrogenase uncover an extended network of communication.

J Am Chem Soc 2014 Oct 14;136(42):14821-33. Epub 2014 Oct 14.

Department of Chemistry, ‡Department of Molecular and Cell Biology, and the §California Institute for Quantitative Biosciences, University of California , Berkeley, California 94720, United States.

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http://dx.doi.org/10.1021/ja506667kDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4210157PMC
October 2014

Picosecond-resolved fluorescent probes at functionally distinct tryptophans within a thermophilic alcohol dehydrogenase: relationship of temperature-dependent changes in fluorescence to catalysis.

J Phys Chem B 2014 Jun 3;118(23):6049-61. Epub 2014 Jun 3.

Department of Chemistry, ‡Department of Molecular and Cell Biology, and the §California Institute for Quantitative Biosciences, University of California, Berkeley , Berkeley, California 94720, United States.

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http://dx.doi.org/10.1021/jp500825xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4056859PMC
June 2014

Intrigues and intricacies of the biosynthetic pathways for the enzymatic quinocofactors: PQQ, TTQ, CTQ, TPQ, and LTQ.

Chem Rev 2014 Apr 18;114(8):4343-65. Epub 2013 Dec 18.

Department of Chemistry, ‡Department of Molecular and Cell Biology, and the §California Institute for Quantitative Biosciences (QB3), University of California at Berkeley , Berkeley, California 94720, United States.

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http://dx.doi.org/10.1021/cr400475gDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3999297PMC
April 2014

Hydrogen tunneling in a prokaryotic lipoxygenase.

Biochemistry 2014 Apr 3;53(14):2212-4. Epub 2014 Apr 3.

Department of Chemistry, ‡Department of Molecular and Cell Biology, and §California Institute for Quantitative Biosciences (QB3), University of California , Berkeley, California 94720, United States.

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http://dx.doi.org/10.1021/bi500070qDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4004258PMC
April 2014

The power of integrating kinetic isotope effects into the formalism of the Michaelis-Menten equation.

Authors:
Judith P Klinman

FEBS J 2014 Jan 2;281(2):489-97. Epub 2013 Sep 2.

Departments of Chemistry and Molecular and Cell Biology, California Institute for Quantitative Biosciences, University of California, Berkeley, CA, USA.

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http://dx.doi.org/10.1111/febs.12477DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4005594PMC
January 2014

Hydrogen tunneling links protein dynamics to enzyme catalysis.

Annu Rev Biochem 2013 ;82:471-96

Department of Chemistry, California Institute for Quantitative Sciences, University of California, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1146/annurev-biochem-051710-133623DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4066974PMC
November 2013

Structural snapshots from the oxidative half-reaction of a copper amine oxidase: implications for O2 activation.

J Biol Chem 2013 Sep 12;288(39):28409-17. Epub 2013 Aug 12.

From the Department of Biochemistry, Molecular Biology, and Biophysics, University of Minnesota, Minneapolis, Minnesota 55455 and.

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http://dx.doi.org/10.1074/jbc.M113.501791DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3784758PMC
September 2013

Multistep, eight-electron oxidation catalyzed by the cofactorless oxidase, PqqC: identification of chemical intermediates and their dependence on molecular oxygen.

Biochemistry 2013 Jul 25;52(27):4667-75. Epub 2013 Jun 25.

Department of Chemistry, ‡Department of Molecular and Cell Biology, and §California Institute for Quantitative Biosciences (QB3), University of California , Berkeley, California 94720, United States.

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http://pubs.acs.org/doi/10.1021/bi4003315
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http://dx.doi.org/10.1021/bi4003315DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3825819PMC
July 2013

Identification of a long-range protein network that modulates active site dynamics in extremophilic alcohol dehydrogenases.

J Biol Chem 2013 May 22;288(20):14087-97. Epub 2013 Mar 22.

Department of Chemistry, University of California, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1074/jbc.M113.453951DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3656266PMC
May 2013

Structural analysis of aliphatic versus aromatic substrate specificity in a copper amine oxidase from Hansenula polymorpha.

Biochemistry 2013 Apr 22;52(13):2291-301. Epub 2013 Mar 22.

Department of Biochemistry, Molecular Biology and Biophysics, University of Minnesota, Minneapolis, MN 55455, USA.

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http://dx.doi.org/10.1021/bi3016845DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3633420PMC
April 2013

Importance of protein dynamics during enzymatic C-H bond cleavage catalysis.

Authors:
Judith P Klinman

Biochemistry 2013 Mar 12;52(12):2068-77. Epub 2013 Feb 12.

Department of Chemistry, Department of Molecular and Cell Biology, and California Institute for Quantitative Biosciences (QB3), University of California , Berkeley, California 94720-3220, United States.

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http://dx.doi.org/10.1021/bi301504mDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4091948PMC
March 2013

Interdomain long-range electron transfer becomes rate-limiting in the Y216A variant of tyramine β-monooxygenase.

Biochemistry 2013 Feb 6;52(7):1179-91. Epub 2013 Feb 6.

Department of Chemistry, University of California, Berkeley, CA 94720, USA.

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http://pubs.acs.org/doi/10.1021/bi3013609
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http://dx.doi.org/10.1021/bi3013609DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3936603PMC
February 2013

Inactivation of Met471Cys tyramine β-monooxygenase results from site-specific cysteic acid formation.

Biochemistry 2012 Sep 12;51(38):7488-95. Epub 2012 Sep 12.

Department of Chemistry, University of California, Berkeley, CA 94720, USA.

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http://dx.doi.org/10.1021/bi300456fDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3567250PMC
September 2012

Implication for functions of the ectopic adipocyte copper amine oxidase (AOC3) from purified enzyme and cell-based kinetic studies.

PLoS One 2012 4;7(1):e29270. Epub 2012 Jan 4.

Department of Chemistry, University of California, Berkeley, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0029270PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3251558PMC
May 2012

The precursor form of Hansenula polymorpha copper amine oxidase 1 in complex with CuI and CoII.

Acta Crystallogr Sect F Struct Biol Cryst Commun 2012 May 20;68(Pt 5):501-10. Epub 2012 Apr 20.

Department of Biochemistry, Molecular Biology and Biophysics, University of Minnesota, 321 Church Street SE, Minneapolis, MN 55455, USA.

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http://dx.doi.org/10.1107/S1744309112012857DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3374502PMC
May 2012

Distribution and properties of the genes encoding the biosynthesis of the bacterial cofactor, pyrroloquinoline quinone.

Biochemistry 2012 Mar 9;51(11):2265-75. Epub 2012 Mar 9.

Department of Chemistry, University of California, Berkeley, California 94720, United States.

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http://pubs.acs.org/doi/10.1021/bi201763d
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http://dx.doi.org/10.1021/bi201763dDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3334298PMC
March 2012

Enzymatic methyl transfer: role of an active site residue in generating active site compaction that correlates with catalytic efficiency.

J Am Chem Soc 2011 Nov 10;133(43):17134-7. Epub 2011 Oct 10.

Department of Chemistry, University of California, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1021/ja207467dDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3219439PMC
November 2011

Comparative hydrogen-deuterium exchange for a mesophilic vs thermophilic dihydrofolate reductase at 25 °C: identification of a single active site region with enhanced flexibility in the mesophilic protein.

Biochemistry 2011 Sep 30;50(38):8251-60. Epub 2011 Aug 30.

Department of Chemistry, California Institute for Quantitative Biosciences (QB3), University of California, Berkeley, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1021/bi200640sDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3180199PMC
September 2011

Impaired protein conformational landscapes as revealed in anomalous Arrhenius prefactors.

Proc Natl Acad Sci U S A 2011 Jun 13;108(26):10520-5. Epub 2011 Jun 13.

Department of Chemistry, University of California, Berkeley, CA 94720, USA.

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http://dx.doi.org/10.1073/pnas.1104989108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3127881PMC
June 2011

Characterization of a protein-generated O₂ binding pocket in PqqC, a cofactorless oxidase catalyzing the final step in PQQ production.

Biochemistry 2011 Mar 14;50(9):1556-66. Epub 2011 Feb 14.

Department of Chemistry, University of California, Berkeley, California 94720, United States.

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http://dx.doi.org/10.1021/bi1015474DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4002361PMC
March 2011

Investigating inner-sphere reorganization via secondary kinetic isotope effects in the C-H cleavage reaction catalyzed by soybean lipoxygenase: tunneling in the substrate backbone as well as the transferred hydrogen.

J Am Chem Soc 2011 Jan 30;133(3):430-9. Epub 2010 Dec 30.

Department of Chemistry and California Institute for Quantitative Biosciences, University of California, Berkeley, California 94720, United States.

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http://dx.doi.org/10.1021/ja1050742DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3090704PMC
January 2011

Update 1 of: Tunneling and dynamics in enzymatic hydride transfer.

Chem Rev 2010 Dec;110(12):PR41-67

Department of Chemistry and the California Institute for Quantitative Biosciences, University of California, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1021/cr1001035DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4067601PMC
December 2010

The copper centers of tyramine β-monooxygenase and its catalytic-site methionine variants: an X-ray absorption study.

J Biol Inorg Chem 2010 Nov 11;15(8):1195-207. Epub 2010 Jun 11.

Department of Chemistry and of Molecular and Cell Biology, University of California, Berkeley, CA 94720, USA.

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http://dx.doi.org/10.1007/s00775-010-0677-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2988203PMC
November 2010

Enzyme dynamics: Control of active-site compression.

Authors:
Judith P Klinman

Nat Chem 2010 Nov;2(11):907-9

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http://dx.doi.org/10.1038/nchem.886DOI Listing
November 2010

Interaction of PqqE and PqqD in the pyrroloquinoline quinone (PQQ) biosynthetic pathway links PqqD to the radical SAM superfamily.

Chem Commun (Camb) 2010 Oct 25;46(37):7031-3. Epub 2010 Aug 25.

Department of Chemistry, Department of Molecular and Cell Biology, and the California Institute for Quantitative Biosciences, University of California, Berkeley, CA 94720, USA.

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http://dx.doi.org/10.1039/c0cc00968gDOI Listing
October 2010

Structural studies of mutant forms of the PQQ-forming enzyme PqqC in the presence of product and substrate.

Proteins 2010 Aug;78(11):2554-62

Department of Molecular Biology, University of Salzburg, 5020 Salzburg, Austria.

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http://dx.doi.org/10.1002/prot.22769DOI Listing
August 2010

Mutation at a strictly conserved, active site tyrosine in the copper amine oxidase leads to uncontrolled oxygenase activity.

Biochemistry 2010 Aug;49(34):7393-402

Department of Biochemistry and Molecular Biophysics, Washington University School of Medicine, 660 South Euclid Avenue, Box 8231, St. Louis, Missouri 63110, USA.

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http://dx.doi.org/10.1021/bi100643yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2927706PMC
August 2010

Temperature dependence of protein motions in a thermophilic dihydrofolate reductase and its relationship to catalytic efficiency.

Proc Natl Acad Sci U S A 2010 Jun 13;107(22):10074-9. Epub 2010 May 13.

Department of Chemistry and of Molecular and Cell Biology, University of California, Berkeley, CA 94720, USA.

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http://dx.doi.org/10.1073/pnas.1003678107DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2890430PMC
June 2010

An active-site phenylalanine directs substrate binding and C-H cleavage in the alpha-ketoglutarate-dependent dioxygenase TauD.

J Am Chem Soc 2010 Apr;132(14):5114-20

Department of Chemistry, California Institute for Quantitative Biosciences, University of California, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1021/ja909416zDOI Listing
April 2010

Modular behavior of tauD provides insight into the origin of specificity in alpha-ketoglutarate-dependent nonheme iron oxygenases.

Proc Natl Acad Sci U S A 2009 Nov 5;106(47):19791-5. Epub 2009 Nov 5.

Department of Chemistry and of Molecular, University of California, Berkeley, CA 94720-1460, USA.

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http://dx.doi.org/10.1073/pnas.0910660106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2785245PMC
November 2009

A 21st century revisionist's view at a turning point in enzymology.

Nat Chem Biol 2009 Aug;5(8):543-50

Department of Chemistry, University of California, Berkeley, California, USA.

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http://dx.doi.org/10.1038/nchembio.204DOI Listing
August 2009

Galactose oxidase as a model for reactivity at a copper superoxide center.

J Am Chem Soc 2009 Apr;131(13):4657-63

Department of Chemistry, University of California, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1021/ja807963eDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2683747PMC
April 2009

An integrated model for enzyme catalysis emerges from studies of hydrogen tunneling.

Authors:
Judith P Klinman

Chem Phys Lett 2009 Mar;471(4-6):179-193

Departments of Chemistry and Molecular and Cell Biology, University of California, Berkeley, CA 94720-1460, USA.

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http://dx.doi.org/10.1016/j.cplett.2009.01.038DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2846846PMC
March 2009

Experimental evidence for hydrogen tunneling when the isotopic arrhenius prefactor (A(H)/A(D)) is unity.

J Am Chem Soc 2008 Dec;130(52):17632-3

Department of Chemistry and Molecular and Cell Biology, University of California, Berkeley, California 94720-1460, USA.

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http://dx.doi.org/10.1021/ja806354wDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2671078PMC
December 2008

Hydroxylase activity of Met471Cys tyramine beta-monooxygenase.

J Am Chem Soc 2008 Sep 19;130(36):11939-44. Epub 2008 Aug 19.

Department of Chemistry, University of California, Berkeley, California 94720-3220, USA.

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http://dx.doi.org/10.1021/ja800408hDOI Listing
September 2008

18O kinetic isotope effects in non-heme iron enzymes: probing the nature of Fe/O2 intermediates.

J Am Chem Soc 2008 Jul 7;130(26):8122-3. Epub 2008 Jun 7.

Department of Chemistry, University of California, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1021/ja800265sDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2788235PMC
July 2008

Synthesis of linoleic acids combinatorially-labeled at the vinylic positions as substrates for lipoxygenases.

Tetrahedron Lett 2008 May;49(22):3600-3603

Department of Chemistry, University of California, Berkeley, CA 94720.

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http://dx.doi.org/10.1016/j.tetlet.2008.04.023DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2699306PMC
May 2008

Mechanism of the insect enzyme, tyramine beta-monooxygenase, reveals differences from the mammalian enzyme, dopamine beta-monooxygenase.

J Biol Chem 2008 Feb 21;283(6):3042-9. Epub 2007 Nov 21.

Departments of Chemistry and Molecular and Cell Biology, University of California, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1074/jbc.M705911200DOI Listing
February 2008

The nature of O2 activation by the ethylene-forming enzyme 1-aminocyclopropane-1-carboxylic acid oxidase.

Proc Natl Acad Sci U S A 2008 Feb 31;105(6):1814-9. Epub 2008 Jan 31.

Department of Chemistry, University of California, Berkeley, CA 94720, USA.

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http://dx.doi.org/10.1073/pnas.0711626105DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2538845PMC
February 2008

Enzyme structure and dynamics affect hydrogen tunneling: the impact of a remote side chain (I553) in soybean lipoxygenase-1.

Proc Natl Acad Sci U S A 2008 Jan 23;105(4):1146-51. Epub 2008 Jan 23.

Department of Chemistry and of Molecular and Cell Biology, University of California, Berkeley, CA 94720-1460, USA.

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http://dx.doi.org/10.1073/pnas.0710643105DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2234106PMC
January 2008

Partial conversion of Hansenula polymorpha amine oxidase into a "plant" amine oxidase: implications for copper chemistry and mechanism.

Biochemistry 2007 Sep 31;46(38):10817-27. Epub 2007 Aug 31.

Department of Chemistry, University of California, Berkeley, California 94720-1460, USA.

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http://dx.doi.org/10.1021/bi700943rDOI Listing
September 2007

Exploring molecular oxygen pathways in Hansenula polymorpha copper-containing amine oxidase.

J Biol Chem 2007 Jun 4;282(24):17767-76. Epub 2007 Apr 4.

Department of Biochemistry, Molecular Biology and Biophysics, University of Minnesota, Minneapolis, Minnesota 55455, USA.

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http://dx.doi.org/10.1074/jbc.M701308200DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3081669PMC
June 2007

Pyrroloquinoline quinone biogenesis: characterization of PqqC and its H84N and H84A active site variants.

Biochemistry 2007 Jun 25;46(24):7174-86. Epub 2007 May 25.

Department of Chemistry, University of California, Berkeley, California 94720, USA.

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http://pubs.acs.org/doi/abs/10.1021/bi700162n
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June 2007

How do enzymes activate oxygen without inactivating themselves?

Authors:
Judith P Klinman

Acc Chem Res 2007 May 3;40(5):325-33. Epub 2007 May 3.

Department of Chemistry, University of California, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1021/ar6000507DOI Listing
May 2007

The catalytic role of the copper ligand H172 of peptidylglycine alpha-hydroxylating monooxygenase: a kinetic study of the H172A mutant.

Biochemistry 2006 Dec 6;45(51):15419-29. Epub 2006 Dec 6.

Department of Chemistry, University of California, Berkeley, California 94720-1460, USA.

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http://dx.doi.org/10.1021/bi061734cDOI Listing
December 2006

Mechanism of O2 activation by cytochrome P450cam studied by isotope effects and transient state kinetics.

Biochemistry 2006 Dec;45(51):15793-806

Department of Chemistry, University of California, Berkeley, California 94720-1460, USA.

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http://dx.doi.org/10.1021/bi061726wDOI Listing
December 2006

Mechanistic investigations of 1-aminocyclopropane 1-carboxylic acid oxidase with alternate cyclic and acyclic substrates.

Biochemistry 2006 Oct;45(43):13108-17

Department of Chemistry, University of California, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1021/bi061097qDOI Listing
October 2006

Pathway for the stereocontrolled Z and E production of alpha,alpha-difluorine-substituted phenyl butenoates.

J Org Chem 2006 Oct;71(22):8618-21

BioSciences, FRE-CNRS 3005, Faculté des Sciences et Techniques, Université Paul Cézanne Aix-Marseille III, Avenue Escadrille Normandie-Niemen, 13397 Marseille Cedex 20, France.

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http://dx.doi.org/10.1021/jo061022sDOI Listing
October 2006

The role of tunneling in enzyme catalysis of C-H activation.

Authors:
Judith P Klinman

Biochim Biophys Acta 2006 Aug 8;1757(8):981-7. Epub 2006 Feb 8.

Department of Chemistry, University of California, Berkeley, CA 94720, USA.

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http://dx.doi.org/10.1016/j.bbabio.2005.12.004DOI Listing
August 2006

Linking protein structure and dynamics to catalysis: the role of hydrogen tunnelling.

Authors:
Judith P Klinman

Philos Trans R Soc Lond B Biol Sci 2006 Aug;361(1472):1323-31

Department of Chemistry, University of California, Berkeley, CA 94720-1460, USA.

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http://dx.doi.org/10.1098/rstb.2006.1870DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1647309PMC
August 2006

Tunneling and dynamics in enzymatic hydride transfer.

Chem Rev 2006 Aug;106(8):3095-118

Department of Chemistry and Department of Molecular and Cell Biology, University of California, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1021/cr050301xDOI Listing
August 2006

Investigation of Cu(I)-dependent 2,4,5-trihydroxyphenylalanine quinone biogenesis in Hansenula polymorpha amine oxidase.

J Biol Chem 2006 Jul 22;281(30):21114-8. Epub 2006 May 22.

Department of Chemistry, University of California, Berkeley, 94720-1460, USA.

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http://dx.doi.org/10.1074/jbc.M601501200DOI Listing
July 2006

Relationship of stopped flow to steady state parameters in the dimeric copper amine oxidase from Hansenula polymorpha and the role of zinc in inhibiting activity at alternate copper-containing subunits.

Biochemistry 2006 Apr;45(14):4683-94

Department of Chemistry and Department of Molecular and Cell Biology, University of California, Berkeley, California 94720, USA.

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http://pubs.acs.org/doi/abs/10.1021/bi0521893
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April 2006

Role of a strictly conserved active site tyrosine in cofactor genesis in the copper amine oxidase from Hansenula polymorpha.

Biochemistry 2006 Mar;45(10):3178-88

Department of Chemistry, University of California, Berkeley, California 94720, USA.

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http://dx.doi.org/10.1021/bi052025mDOI Listing
March 2006

Modeling temperature dependent kinetic isotope effects for hydrogen transfer in a series of soybean lipoxygenase mutants: The effect of anharmonicity upon transfer distance.

Chem Phys 2005 Dec;319(1-3):283-296

Department of Chemistry and Department of Molecular and Cell Biology, University of California, Berkeley, CA 94720, USA.

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http://dx.doi.org/10.1016/j.chemphys.2005.05.017DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2995544PMC
December 2005