Publications by authors named "Paul D Adams"

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One-step purification of a bioactive PAK1-derived peptide.
Djamali Muhoza, Emily P Esquivel, Stacy R Hunter, Patience S Okoto, Thallapuranam K S Kumar, Paul D Adams

Anal Biochem· February 2026

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A highly active Burkholderia polyketoacyl-CoA thiolase for production of triacetic acid lactone.
Zilong Wang, Seokjung Cheong, Jose Henrique Pereira, Weixi Hu, Yifan Guo, Paul D Adams

Nat Commun· December 2025

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Automation and machine learning drive rapid optimization of isoprenol production in Pseudomonas putida.
David N Carruthers, Patrick C Kinnunen, Yuerong Li, Yan Chen, Jennifer W Gin, Paul D Adams

Nat Commun· December 2025

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Predictive CRISPR-mediated gene downregulation for enhanced production of sustainable aviation fuel precursor in Pseudomonas putida.
Ian S Yunus, David N Carruthers, Yan Chen, Jennifer W Gin, Edward E K Baidoo, Paul D Adams

Metab Eng· November 2025

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Diversity-driven biochemical survey reveals dimeric structural origin of rubisco.
Alexander J Kehl, Leah Taylor-Kearney, Alexander L Jaffe, Jose Henrique Pereira, Jennifer Lee, Paul D Adams

bioRxiv· November 2025

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AQuaRef: machine learning accelerated quantum refinement of protein structures.
Roman Zubatyuk, Malgorzata Biczysko, Kavindri Ranasinghe, Nigel W Moriarty, Hatice Gokcan, Paul D Adams

Nat Commun· October 2025

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Biosensor-driven strain engineering reveals key cellular processes for maximizing isoprenol production in .
Javier Menasalvas, Shawn Kulakowski, Yan Chen, Jennifer W Gin, Emine Akyuz Turumtay, Paul D Adams

Sci Adv· October 2025

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Bayesian multi-state multi-condition modeling of a protein structure based on X-ray crystallography data.
Matthew Hancock, James Holton, James S Fraser, Paul D Adams, Andrej Sali

bioRxiv· October 2025

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A large-scale screening campaign of putative carbohydrate-active enzymes reveals a novel xylanase from anaerobic gut fungi.
Shiyan Jin, Isabella R Farrand, Yan Chen, Jennifer W Gin, Bo Zhang, Paul D Adams

mBio· September 2025

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Fibroblast Growth Factors: Roles and Emerging Therapeutic Applications.
Gaëtane Ternier, Kaynat Shahzad, Oshadi Edirisinghe, Patience Okoto, Zeina Alraawi, Paul D Adams

Curr Drug Targets· August 2025

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Validated ligand geometries for macromolecular refinement restraints and molecular mechanics force fields.
Nigel W Moriarty, David A Case, Dorothee Liebschner, Paul D Adams

bioRxiv· August 2025

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Biochemical and structural characterization of glycosyltransferase family 61 proteins reveal a key determinant of sugar donor specificity.
Hsin-Tzu Wang, Jose Henrique Pereira, Andy M DeGiovanni, Pradeep Kumar Prabhakar, Digantkumar Chapla, Paul D Adams

bioRxiv· July 2025

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High-Throughput Microfluidic Electroporation (HTME): A Scalable, 384-Well Platform for Multiplexed Cell Engineering.
William R Gaillard, Jess Sustarich, Yuerong Li, David N Carruthers, Kshitiz Gupta, Paul D Adams

Bioengineering (Basel)· July 2025

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AQuaRef: Machine learning accelerated quantum refinement of protein structures.
Roman Zubatyuk, Malgorzata Biczysko, Kavindri Ranasinghe, Nigel W Moriarty, Hatice Gokcan, Paul D Adams

bioRxiv· April 2025

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Modest functional diversity decline and pronounced composition shifts of microbial communities in a mixed waste-contaminated aquifer.
Yupeng Fan, Dongyu Wang, Joy X Yang, Daliang Ning, Zhili He, Michael W W Adams, Paul D Adams

Microbiome· April 2025

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Enzymatic cleavage of model lignin dimers depends on pH, enzyme, and bond type.
Jenny R Onley, Kshitiz Gupta, Markus de Raad, Benjamin P Bowen, Stephen Tan, Paul D Adams

Sci Rep· March 2025

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The crystal structure of Grindelia robusta 7,13-copalyl diphosphate synthase reveals active site features controlling catalytic specificity.
Anna E Cowie, Jose H Pereira, Andy DeGiovanni, Ryan P McAndrew, Malathy Palayam, Paul D Adams

J Biol Chem· December 2024

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A cost-effective enzyme kinetics and inhibition model for biochemistry education and research.
Lauren VanDee, Alyssa Teague, Taylor East, Kim Rhona Jacinto, Macie Carter, Paul D Adams

Biochem Mol Biol Educ· November 2024

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Characterization of lignin-degrading enzyme PmdC, which catalyzes a key step in the synthesis of polymer precursor 2-pyrone-4,6-dicarboxylic acid.
Andria V Rodrigues, Nigel W Moriarty, Ramu Kakumanu, Andy DeGiovanni, Jose Henrique Pereira, Paul D Adams

J Biol Chem· October 2024

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EcoFAB 3.0: a sterile system for studying sorghum that replicates previous field and greenhouse observations.
Kshitiz Gupta, Yang Tian, Aymerick Eudes, Henrik V Scheller, Anup K Singh, Paul D Adams

Front Plant Sci· October 2024

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Structural and biochemical basis for regiospecificity of the flavonoid glycosyltransferase UGT95A1.
Sasilada Sirirungruang, Vincent Blay, Yasmine F Scott, Jose H Pereira, Michal Hammel, Paul D Adams

J Biol Chem· September 2024

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Protonation of histidine rings using quantum-mechanical methods.
Nigel W Moriarty, Jonathan Moussa, Paul D Adams

Acta Crystallogr D Struct Biol· August 2024

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Likelihood-based interactive local docking into cryo-EM maps in ChimeraX.
Randy J Read, Eric F Pettersen, Airlie J McCoy, Tristan I Croll, Thomas C Terwilliger, Paul D Adams

Acta Crystallogr D Struct Biol· August 2024

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Systematic engineering for production of anti-aging sunscreen compound in Pseudomonas putida.
Ian S Yunus, Graham A Hudson, Yan Chen, Jennifer W Gin, Joonhoon Kim, Paul D Adams

Metab Eng· July 2024

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The Phenix-AlphaFold webservice: Enabling AlphaFold predictions for use in Phenix.
Billy K Poon, Thomas C Terwilliger, Paul D Adams

Protein Sci· May 2024

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