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1

Analysis of the π-π Stacking Interactions between the Aminoglycoside Antibiotic Kinase APH(3′)-IIIa and Its Nucleotide Ligands

David D. Boehr, Adam R. Farley, Gerard D. Wright, James R. Cox

Journal:

Chemistry & Biology

Year:

2002

Language:

english

File:

PDF, 193 KB

english, 2002

2

The role of dynamic conformational ensembles in biomolecular recognition

Boehr, David D, Nussinov, Ruth, Wright, Peter E

Journal:

Nature Chemical Biology

Year:

2009

Language:

english

File:

PDF, 746 KB

english, 2009

3

Nucleobase but not Sugar Fidelity is Maintained in the Sabin I RNA-Dependent RNA Polymerase

Liu, Xinran, Musser, Derek, Lee, Cheri, Yang, Xiaorong, Arnold, Jamie, Cameron, Craig, Boehr, David

Journal:

Year:

2015

Language:

english

File:

PDF, 1.55 MB

english, 2015

4

NMR Methods of Characterizing Biomolecular Structural Dynamics and Conformational Ensembles

Boehr, David D.

Journal:

Year:

2018

Language:

english

File:

PDF, 165 KB

english, 2018

5

Millisecond Timescale Motions Connect Amino Acid Interaction Networks in Alpha Tryptophan Synthase

O'Rourke, Kathleen F., Axe, Jennifer M., D'Amico, Rebecca N., Sahu, Debashish, Boehr, David D.

Journal:

Frontiers in Molecular Biosciences

Year:

2018

Language:

english

File:

PDF, 2.46 MB

english, 2018

6

Promiscuity in protein-RNA interactions: Conformational ensembles facilitate molecular recognition in the spliceosome : Conformational diversity in U2AF65 facilitates binding to diverse RNA sequences

Journal:

Year:

2012

Language:

english

File:

PDF, 390 KB

english, 2012

7

Broad-Spectrum Peptide Inhibitors of Aminoglycoside Antibiotic Resistance Enzymes

David D. Boehr, Kari-ann Draker, Kalinka Koteva, Manjeet Bains, Robert E. Hancock, Gerard D. Wright

Journal:

Chemistry & Biology

Year:

2003

Language:

english

File:

PDF, 232 KB

english, 2003

8

Active site labeling of the gentamicin resistance enzyme AAC(6′)-APH(2″) by the lipid kinase inhibitor wortmannin

David D. Boehr, William S. Lane, Gerard D. Wright

Journal:

Chemistry & Biology

Year:

2001

Language:

english

File:

PDF, 575 KB

english, 2001

9

Erratum: The role of dynamic conformational ensembles in biomolecular recognition

Boehr, David D, Nussinov, Ruth, Wright, Peter E

Journal:

Nature Chemical Biology

Year:

2009

Language:

english

File:

PDF, 47 KB

english, 2009

10

Conformational selection and induced changes along the catalytic cycle of Escherichia coli dihydrofolate reductase

Thomas R. Weikl, David D. Boehr

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2012

Language:

english

File:

PDF, 646 KB

english, 2012

11

Differences in the catalytic mechanisms of mesophilic and thermophilic indole-3-glycerol phosphate synthase enzymes at their adaptive temperatures

Margot J. Zaccardi, Olga Mannweiler, David D. Boehr

Journal:

Biochemical and Biophysical Research Communications

Year:

2012

Language:

english

File:

PDF, 541 KB

english, 2012

12

During Transitions Proteins Make Fleeting Bonds

Journal:

Year:

2009

Language:

english

File:

PDF, 272 KB

english, 2009

13

Human acylation stimulating protein enhances triacylglycerol biosynthesis in plant microsomes

Randall J. Weselake, E.Chris Kazala, Katherine Cianflone, David D. Boehr, Cameron K. Middleton, Courtney D. Rennie, André Laroche, Ingrid Recnik

Journal:

Year:

2000

Language:

english

File:

PDF, 106 KB

english, 2000

14

Motif D of Viral RNA-Dependent RNA Polymerases Determines Efficiency and Fidelity of Nucleotide Addition

Xiaorong Yang, Eric D. Smidansky, Kenneth R. Maksimchuk, David Lum, Jesse L. Welch, Jamie J. Arnold, Craig E. Cameron, David D. Boehr

Journal:

Year:

2012

Language:

english

File:

PDF, 2.16 MB

english, 2012

15

An NMR Perspective on Enzyme Dynamics

Boehr, David D., Dyson, H. Jane, Wright, Peter E.

Journal:

Chemical Reviews

Year:

2006

Language:

english

File:

PDF, 2.09 MB

english, 2006

16

A Distal Mutation Perturbs Dynamic Amino Acid Networks in Dihydrofolate Reductase

Boehr, David D., Schnell, Jason R., McElheny, Dan, Bae, Sung-Hun, Duggan, Brendan M., Benkovic, Stephen J., Dyson, H. Jane, Wright, Peter E.

Journal:

Year:

2013

Language:

english

File:

PDF, 536 KB

english, 2013

17

Establishing the Principles of Recognition in the Adenine-Binding Region of an Aminoglycoside Antibiotic Kinase [APH(3‘)-IIIa] †

Boehr, David D., Farley, Adam R., LaRonde, Frank J., Murdock, Tera Rica, Wright, Gerard D., Cox, James R.

Journal:

Year:

2005

Language:

english

File:

PDF, 388 KB

english, 2005

18

Amino Acid Networks in a (β/α) 8 Barrel Enzyme Change during Catalytic Turnover

Axe, Jennifer M., Yezdimer, Eric M., O’Rourke, Kathleen F., Kerstetter, Nicole E., You, Wanli, Chang, Chia-en A., Boehr, David D.

Journal:

Journal of the American Chemical Society

Year:

2014

Language:

english

File:

PDF, 1.13 MB

english, 2014

19

The Election to the Council of the Royal College of Surgeons of England.

Boehr, David D.

Journal:

Year:

1909

Language:

english

File:

PDF, 305 KB

english, 1909

20

The Ins and Outs of Viral RNA Polymerase Translocation

Boehr, David D.

Journal:

Journal of Molecular Biology

Year:

2014

Language:

english

File:

PDF, 285 KB

english, 2014

21

Nanosecond-Timescale Dynamics of the Viral RNA-Dependent RNA Polymerase as a Determinant of Incorporation Fidelity

Moustafa, Ibrahim M., Korneeva, Victoria S., Arnold, Jamie J., Smidansky, Eric D., Marcotte, Laura L., Yang, Xiaorong, Sanchez Farran, Maria A., Maranas, Janna K., Boehr, David D., Hogle, James M., Co

Journal:

Biophysical Journal

Year:

2013

Language:

english

File:

PDF, 34 KB

english, 2013

22

The Role of Phosphatidylinositol Phosphates (PIPs) in Poliovirus Replication Complexes Trafficking to Viral Replication Organelles

Chan, Yan M., Yang, Xiaorong, Boehr, David D.

Journal:

Biophysical Journal

Year:

2013

Language:

english

File:

PDF, 36 KB

english, 2013

23

Long-Range Interactions in the Alpha Subunit of Tryptophan Synthase Help to Coordinate Ligand Binding, Catalysis, and Substrate Channeling

Axe, Jennifer M., Boehr, David D.

Journal:

Journal of Molecular Biology

Year:

2013

Language:

english

File:

PDF, 2.56 MB

english, 2013

24

Design of Bifunctional Antibiotics that Target Bacterial rRNA and Inhibit Resistance-Causing Enzymes

Sucheck, Steven J., Wong, Andrew L., Koeller, Kathryn M., Boehr, David D., Draker, Kari-ann, Sears, Pamela, Wright, Gerard D., Wong, Chi-Huey

Journal:

Journal of the American Chemical Society

Year:

2000

Language:

english

File:

PDF, 72 KB

english, 2000

25

Long-Range Interaction Networks in the Function and Fidelity of Poliovirus RNA-Dependent RNA Polymerase Studied by Nuclear Magnetic Resonance

Yang, Xiaorong, Welch, Jesse L., Arnold, Jamie J., Boehr, David D.

Journal:

Year:

2010

Language:

english

File:

PDF, 4.50 MB

english, 2010

26

Domain−Domain Interactions in the Aminoglycoside Antibiotic Resistance Enzyme AAC(6‘)-APH(2‘ ‘) †

Boehr, David D., Daigle, Denis M., Wright, Gerard D.

Journal:

Year:

2004

Language:

english

File:

PDF, 101 KB

english, 2004

27

Conformational Relaxation following Hydride Transfer Plays a Limiting Role in Dihydrofolate Reductase Catalysis †

Boehr, David D., Dyson, H. Jane, Wright, Peter E.

Journal:

Year:

2008

Language:

english

File:

PDF, 1.43 MB

english, 2008

28

Mechanism of Aminoglycoside Antibiotic Kinase APH(3‘)-IIIa: Role of the Nucleotide Positioning Loop †

Thompson, Paul R., Boehr, David D., Berghuis, Albert M., Wright, Gerard D.

Journal:

Year:

2002

Language:

english

File:

PDF, 185 KB

english, 2002

29

Targeting structural dynamics of the RNA-dependent RNA polymerase for anti-viral strategies

Boehr, David D, Liu, Xinran, Yang, Xiaorong

Journal:

Current Opinion in Virology

Year:

2014

Language:

english

File:

PDF, 1.63 MB

english, 2014

30

Severing of a hydrogen bond disrupts amino acid networks in the catalytically active state of the alpha subunit of tryptophan synthase

Axe, Jennifer M., O'Rourke, Kathleen F., Kerstetter, Nicole E., Yezdimer, Eric M., Chan, Yan M., Chasin, Alexander, Boehr, David D.

Journal:

Protein Science

Year:

2015

Language:

english

File:

PDF, 5.39 MB

english, 2015

31

Loop-loop interactions govern multiple steps in indole-3-glycerol phosphate synthase catalysis

Zaccardi, Margot J., O'Rourke, Kathleen F., Yezdimer, Eric M., Loggia, Laura J., Woldt, Svenja, Boehr, David D.

Journal:

Protein Science

Year:

2014

Language:

english

File:

PDF, 381 KB

english, 2014

32

Millisecond Timescale Fluctuations in Dihydrofolate Reductase Are Exquisitely Sensitive to the Bound Ligands

David D. Boehr, Dan McElheny, H. Jane Dyson and Peter E. Wright

Journal:

Proceedings of the National Academy of Sciences

Year:

2010

Language:

english

File:

PDF, 1.44 MB

english, 2010

33

Long-Range Communication between Different Functional Sites in the Picornaviral 3C Protein

Chan, Yan M., Moustafa, Ibrahim M., Arnold, Jamie J., Cameron, Craig E., Boehr, David D.

Journal:

Year:

2016

Language:

english

File:

PDF, 2.50 MB

english, 2016

34

Allosteric Functional Switch in Poliovirus 3C Protease

Chan, Yan M., Boehr, David D.

Journal:

Biophysical Journal

Year:

2015

Language:

english

File:

PDF, 39 KB

english, 2015

35

The Impact of Perturbing Dynamic Amino Acid Networks in a (β/α)8 Barrel Enzyme

O’Rourke, Kathleen F., Axe, Jennifer M., Kerstetter, Nicole E., Boehr, David D.

Journal:

Biophysical Journal

Year:

2015

Language:

english

File:

PDF, 40 KB

english, 2015

36

Biophysical and computational methods to analyze amino acid interaction networks in proteins

O'Rourke, Kathleen F., Gorman, Scott D., Boehr, David D.

Journal:

Computational and Structural Biotechnology Journal

Year:

2016

Language:

english

File:

PDF, 1.60 MB

english, 2016

37

Functional Annotation of Putative Aminoglycoside Antibiotic Modifying Proteins in Mycobacterium tuberculosis H37Rv.

DRAKER, KARI-ANN, BOEHR, DAVID D., ELOWE, NADINE H., NOGA, THERESA J., WRIGHT, GERARD D.

Journal:

The Journal of Antibiotics

Year:

2003

Language:

english

File:

PDF, 1.87 MB

english, 2003

38

Triphosphate Reorientation of the Incoming Nucleotide as a Fidelity Checkpoint in Viral RNA-dependent RNA Polymerases

Yang, Xiaorong, Liu, Xinran, Musser, Derek M., Moustafa, Ibrahim M., Arnold, Jamie J., Cameron, Craig E., Boehr, David D.

Journal:

Journal of Biological Chemistry

Year:

2017

Language:

english

File:

PDF, 4.26 MB

english, 2017

39

The RNA-Binding Site of Poliovirus 3C Protein Doubles as a Phosphoinositide-Binding Domain

Shengjuler, Djoshkun, Chan, Yan Mei, Sun, Simou, Moustafa, Ibrahim M., Li, Zhen-Lu, Gohara, David W., Buck, Matthias, Cremer, Paul S., Boehr, David D., Cameron, Craig E.

Journal:

Year:

2017

Language:

english

File:

PDF, 3.74 MB

english, 2017

40

Engineered control of enzyme structural dynamics and function

Boehr, David D., D'Amico, Rebecca N., O'Rourke, Kathleen F.

Journal:

Protein Science

Year:

2018

Language:

english

File:

PDF, 1.76 MB

english, 2018

41

Assigning methyl resonances for protein solution-state NMR studies

Gorman, Scott D., Sahu, Debashish, O'Rourke, Kathleen F., Boehr, David D.

Journal:

Year:

2018

Language:

english

File:

PDF, 2.23 MB

english, 2018

42

Controlling Active Site Loop Dynamics in the (β/α)8 Barrel Enzyme Indole-3-Glycerol Phosphate Synthase

O’Rourke, Kathleen, Jelowicki, Aneta, Boehr, David

Journal:

Year:

2016

Language:

english

File:

PDF, 2.08 MB

english, 2016

43

Coordinated Network Changes across the Catalytic Cycle of Alpha Tryptophan Synthase

O'Rourke, Kathleen F., Sahu, Debashish, Bosken, Yuliana K., D'Amico, Rebecca N., Chang, Chia-en A., Boehr, David D.

Journal:

Year:

2019

Language:

english

File:

PDF, 3.80 MB

english, 2019

44

Coordinated Network Changes across the Catalytic Cycle of Alpha Tryptophan Synthase

O'Rourke, Kathleen F., Sahu, Debashish, Bosken, Yuliana K., D'Amico, Rebecca N., Chang, Chia-en A., Boehr, David D.

Journal:

Year:

2019

File:

PDF, 3.80 MB

2019

45

Rational control of poliovirus RNA-dependent RNA polymerase fidelity by modulating motif D loop conformational dynamics

Shi, Jingjing, Perryman, Jacob M, Yang, Xiaorong, Liu, Xinran, Musser, Derek M, Boehr, Alyson K, Moustafa, Ibrahim M., Arnold, Jamie J, Cameron, Craig Eugene, Boehr, David Douglas

Journal:

Year:

2019

Language:

english

File:

PDF, 2.07 MB

english, 2019

46

The energy and enzyme activity landscapes of yeast chorismate mutase under cellular concentrations of allosteric effectors

Gorman, Scott, Boehr, David Douglas

Journal:

Year:

2019

Language:

english

File:

PDF, 3.55 MB

english, 2019

47

The energy and enzyme activity landscapes of yeast chorismate mutase under cellular concentrations of allosteric effectors

Gorman, Scott, Boehr, David Douglas

Journal:

Year:

2019

File:

PDF, 3.55 MB

2019

48

2’-C-Methylated nucleotides terminate virus RNA synthesis by preventing active site closure of the viral RNA-dependent RNA polymerase

Boehr, Alyson K, Arnold, Jamie J., Oh, Hyung S, Cameron, Craig E., Boehr, David D

Journal:

Journal of Biological Chemistry

Year:

2019

Language:

english

File:

PDF, 5.67 MB

english, 2019

49

A Six-State Binding Model Gives Rise to Dynamic Activity and Energy Landscapes in Yeast Chorismate Mutase

Gorman, Scott D., Winston, Dennis S., Sahu, Debashish, Boehr, David D.

Journal:

Biophysical Journal

Year:

2020

File:

PDF, 41 KB

2020

50

Different solvent and conformational entropy contributions to the allosteric activation and inhibition mechanisms of yeast chorismate mutase

Gorman, Scott D., Winston, Dennis S, Sahu, Debashish, Boehr, David Douglas

Journal:

Year:

2020

File:

PDF, 1.08 MB

2020

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