Andrew M Watkins

Andrew M Watkins

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Andrew M Watkins

Andrew M Watkins

Publications by authors named "Andrew M Watkins"

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19Publications

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Structure and ligand binding of the glutamine-II riboswitch.

Nucleic Acids Res 2019 Aug;47(14):7666-7675

Cancer Research UK Nucleic Acid Structure Research Group, MSI/WTB Complex, The University of Dundee, Dow Street, Dundee DD1 5EH, UK.

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http://dx.doi.org/10.1093/nar/gkz539DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6698751PMC
August 2019

Using Rosetta for RNA homology modeling.

Methods Enzymol 2019 11;623:177-207. Epub 2019 Jun 11.

Department of Biochemistry, Stanford University School of Medicine, Stanford, CA, United States; Biophysics Program, Stanford University, Stanford, CA, United States. Electronic address:

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http://dx.doi.org/10.1016/bs.mie.2019.05.026DOI Listing
June 2019

Blind prediction of noncanonical RNA structure at atomic accuracy.

Sci Adv 2018 05 25;4(5):eaar5316. Epub 2018 May 25.

Department of Biochemistry, Stanford University School of Medicine, Stanford, CA 94305, USA.

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http://dx.doi.org/10.1126/sciadv.aar5316DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5969821PMC
May 2018

Modeling and Design of Peptidomimetics to Modulate Protein-Protein Interactions.

Methods Mol Biol 2017 ;1561:291-307

Department of Chemistry, New York University, 29 Washington Place, Brown Bldg., Room 360, New York, NY, USA.

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http://dx.doi.org/10.1007/978-1-4939-6798-8_17DOI Listing
February 2018

Rotamer Libraries for the High-Resolution Design of β-Amino Acid Foldamers.

Structure 2017 11 12;25(11):1771-1780.e3. Epub 2017 Oct 12.

Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY 10009, USA; Center for Computational Biology, Flatiron Institute, Simons Foundation, New York, NY 10010, USA; Courant Institute of Mathematical Sciences, Computer Science Department, New York University, New York, NY 10009, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S09692126173029
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http://dx.doi.org/10.1016/j.str.2017.09.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5845441PMC
November 2017

Protein Domain Mimics as Modulators of Protein-Protein Interactions.

Acc Chem Res 2017 06 31;50(6):1313-1322. Epub 2017 May 31.

Department of Chemistry, New York University , 100 Washington Square East, New York, New York 10003, United States.

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http://dx.doi.org/10.1021/acs.accounts.7b00130DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5615855PMC
June 2017

Side-Chain Conformational Preferences Govern Protein-Protein Interactions.

J Am Chem Soc 2016 08 9;138(33):10386-9. Epub 2016 Aug 9.

Center for Computational Biology, Simons Foundation , New York, New York 10010, United States.

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http://dx.doi.org/10.1021/jacs.6b04892DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5005188PMC
August 2016

Protein-Protein Interactions Mediated by Helical Tertiary Structure Motifs.

J Am Chem Soc 2015 Sep 4;137(36):11622-30. Epub 2015 Sep 4.

Department of Chemistry, New York University , New York, New York 10003, United States.

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http://dx.doi.org/10.1021/jacs.5b05527DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4577960PMC
September 2015

Structure-based inhibition of protein-protein interactions.

Eur J Med Chem 2015 Apr 16;94:480-8. Epub 2014 Sep 16.

Department of Chemistry, New York University, 100 Washington Square East, New York, NY 10003, United States. Electronic address:

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http://dx.doi.org/10.1016/j.ejmech.2014.09.047DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4362920PMC
April 2015

The effects of perfluorinated chemicals on adipocyte differentiation in vitro.

Mol Cell Endocrinol 2015 Jan 5;400:90-101. Epub 2014 Nov 5.

Developmental Toxicology Branch, Toxicity Assessment Division, National Health and Environmental Effects Research Lab, Office of Research and Development, US Environmental Protection Agency, Research Triangle Park, NC 27709, USA.

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http://dx.doi.org/10.1016/j.mce.2014.10.020DOI Listing
January 2015

Anatomy of β-strands at protein-protein interfaces.

ACS Chem Biol 2014 Aug 9;9(8):1747-54. Epub 2014 Jun 9.

Department of Chemistry, New York University , New York, New York 10003, United States.

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http://dx.doi.org/10.1021/cb500241yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4136675PMC
August 2014

Effects of side chains in helix nucleation differ from helix propagation.

Proc Natl Acad Sci U S A 2014 May 21;111(18):6636-41. Epub 2014 Apr 21.

Department of Chemistry, New York University, New York, NY 10003.

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http://dx.doi.org/10.1073/pnas.1322833111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4020114PMC
May 2014

HippDB: a database of readily targeted helical protein-protein interactions.

Bioinformatics 2013 Nov 19;29(21):2806-7. Epub 2013 Aug 19.

Department of Anthropology and Department of Chemistry, New York University, New York, NY 10003, USA.

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http://dx.doi.org/10.1093/bioinformatics/btt483DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3799476PMC
November 2013

Testing for departures from additivity in mixtures of perfluoroalkyl acids (PFAAs).

Toxicology 2013 Apr 5;306:169-75. Epub 2013 Mar 5.

Department of Biostatistics, Virginia Commonwealth University, Richmond, VA 23298-0032, USA.

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http://dx.doi.org/10.1016/j.tox.2013.02.016DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3810000PMC
April 2013

Effects of perfluorooctanoic acid (PFOA) on expression of peroxisome proliferator-activated receptors (PPAR) and nuclear receptor-regulated genes in fetal and postnatal CD-1 mouse tissues.

Reprod Toxicol 2012 Jul 1;33(4):491-505. Epub 2011 Dec 1.

Developmental Toxicology Branch, Toxicity Assessment Division (MD-67), National Health and Environmental Effects Research Laboratory, Office of Research and Development, US Environmental Protection Agency, Research Triangle Park, NC 27711, United States.

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http://dx.doi.org/10.1016/j.reprotox.2011.11.005DOI Listing
July 2012

Peroxisome proliferator-activated receptors alpha, Beta, and gamma mRNA and protein expression in human fetal tissues.

PPAR Res 2010 26;2010. Epub 2010 Jul 26.

Toxicity Assessment Division, Developmental Toxicology Branch, National Health and Environmental Effects Research Laboratory, (MD-67), Office of Research and Development, US Environmental Protection Agency, Research Triangle Park, NC 27711, USA.

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http://dx.doi.org/10.1155/2010/690907DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2913814PMC
July 2011