Iterative model building, structure refinement and density modification with the PHENIX AutoBuild wizard
Terwilliger, Thomas C., Grosse-Kunstleve, Ralf W., Afonine, Pavel V., Moriarty, Nigel W., Zwart, Peter H., Hung, Li-Wei, Read, Randy J., Adams, Paul D.
Published in Acta crystallographica. Section D, Biological crystallography. (01.01.2008)
Published in Acta crystallographica. Section D, Biological crystallography. (01.01.2008)
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phenix.mr_rosetta: molecular replacement and model rebuilding with Phenix and Rosetta
Terwilliger, Thomas C., DiMaio, Frank, Read, Randy J., Baker, David, Bunkóczi, Gábor, Adams, Paul D., Grosse-Kunstleve, Ralf W., Afonine, Pavel V., Echols, Nathaniel
Published in Journal of structural and functional genomics (01.06.2012)
Published in Journal of structural and functional genomics (01.06.2012)
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plant glycosyltransferase clone collection for functional genomics
Lao, Jeemeng, Oikawa, Ai, Bromley, Jennifer R, McInerney, Peter, Suttangkakul, Anongpat, Smith‐Moritz, Andreia M, Plahar, Hector, Chiu, Tsan‐Yu, González Fernández‐Niño, Susana M, Ebert, Berit, Yang, Fan, Christiansen, Katy M, Hansen, Sara F, Stonebloom, Solomon, Adams, Paul D, Ronald, Pamela C, Hillson, Nathan J, Hadi, Masood Z, Vega‐Sánchez, Miguel E, Loqué, Dominique, Scheller, Henrik V, Heazlewood, Joshua L
Published in The Plant journal : for cell and molecular biology (01.08.2014)
Published in The Plant journal : for cell and molecular biology (01.08.2014)
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Macromolecular X-ray structure determination using weak, single-wavelength anomalous data
Bunkóczi, Gábor, McCoy, Airlie J, Echols, Nathaniel, Grosse-Kunstleve, Ralf W, Adams, Paul D, Holton, James M, Read, Randy J, Terwilliger, Thomas C
Published in Nature methods (01.02.2015)
Published in Nature methods (01.02.2015)
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Environmental stress mediates groundwater microbial community assembly
Ning, Daliang, Wang, Yajiao, Fan, Yupeng, Wang, Jianjun, Van Nostrand, Joy D, Wu, Liyou, Zhang, Ping, Curtis, Daniel J, Tian, Renmao, Lui, Lauren, Hazen, Terry C, Alm, Eric J, Fields, Matthew W, Poole, Farris, Adams, Michael W W, Chakraborty, Romy, Stahl, David A, Adams, Paul D, Arkin, Adam P, He, Zhili, Zhou, Jizhong
Published in Nature microbiology (01.02.2024)
Published in Nature microbiology (01.02.2024)
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Rapid characterization of the activities of lignin-modifying enzymes based on nanostructure-initiator mass spectrometry (NIMS)
Deng, Kai, Zeng, Jijiao, Cheng, Gang, Gao, Jian, Sale, Kenneth L, Simmons, Blake A, Singh, Anup K, Adams, Paul D, Northen, Trent R
Published in Biotechnology for biofuels (27.09.2018)
Published in Biotechnology for biofuels (27.09.2018)
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From Soil to Structure, a Novel Dimeric β-Glucosidase Belonging to Glycoside Hydrolase Family 3 Isolated from Compost Using Metagenomic Analysis
McAndrew, Ryan P., Park, Joshua I., Heins, Richard A., Reindl, Wolfgang, Friedland, Gregory D., D'haeseleer, Patrik, Northen, Trent, Sale, Kenneth L., Simmons, Blake A., Adams, Paul D.
Published in The Journal of biological chemistry (24.05.2013)
Published in The Journal of biological chemistry (24.05.2013)
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Journal Article
Programming new geometry restraints: parallelity of atomic groups
Sobolev, Oleg V., Afonine, Pavel V., Adams, Paul D., Urzhumtsev, Alexandre
Published in Journal of applied crystallography (01.08.2015)
Published in Journal of applied crystallography (01.08.2015)
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Journal Article
In Vitro Analysis of Carboxyacyl Substrate Tolerance in the Loading and First Extension Modules of Borrelidin Polyketide Synthase
Hagen, Andrew, Poust, Sean, de Rond, Tristan, Yuzawa, Satoshi, Katz, Leonard, Adams, Paul D, Petzold, Christopher J, Keasling, Jay D
Published in Biochemistry (Easton) (30.09.2014)
Published in Biochemistry (Easton) (30.09.2014)
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Structural dynamics in the water and proton channels of photosystem II during the S 2 to S 3 transition
Hussein, Rana, Ibrahim, Mohamed, Bhowmick, Asmit, Simon, Philipp S, Chatterjee, Ruchira, Lassalle, Louise, Doyle, Margaret, Bogacz, Isabel, Kim, In-Sik, Cheah, Mun Hon, Gul, Sheraz, de Lichtenberg, Casper, Chernev, Petko, Pham, Cindy C, Young, Iris D, Carbajo, Sergio, Fuller, Franklin D, Alonso-Mori, Roberto, Batyuk, Alex, Sutherlin, Kyle D, Brewster, Aaron S, Bolotovsky, Robert, Mendez, Derek, Holton, James M, Moriarty, Nigel W, Adams, Paul D, Bergmann, Uwe, Sauter, Nicholas K, Dobbek, Holger, Messinger, Johannes, Zouni, Athina, Kern, Jan, Yachandra, Vittal K, Yano, Junko
Published in Nature communications (2021)
Published in Nature communications (2021)
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Journal Article
Automated identification of elemental ions in macromolecular crystal structures
Echols, Nathaniel, Morshed, Nader, Afonine, Pavel V., McCoy, Airlie J., Miller, Mitchell D., Read, Randy J., Richardson, Jane S., Terwilliger, Thomas C., Adams, Paul D.
Published in Acta crystallographica. Section D, Biological crystallography. (01.04.2014)
Published in Acta crystallographica. Section D, Biological crystallography. (01.04.2014)
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Journal Article
Response of Pseudomonas putida to Complex, Aromatic-Rich Fractions from Biomass
Park, Mee‐Rye, Chen, Yan, Thompson, Mitchell, Benites, Veronica T., Fong, Bonnie, Petzold, Christopher J., Baidoo, Edward E. K., Gladden, John M., Adams, Paul D., Keasling, Jay D., Simmons, Blake A., Singer, Steven W.
Published in ChemSusChem (11.03.2020)
Published in ChemSusChem (11.03.2020)
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Journal Article
Structural and biochemical insight into a modular β-1,4-galactan synthase in plants
Prabhakar, Pradeep Kumar, Pereira, Jose Henrique, Taujale, Rahil, Shao, Wanchen, Bharadwaj, Vivek S, Chapla, Digantkumar, Yang, Jeong-Yeh, Bomble, Yannick J, Moremen, Kelley W, Kannan, Natarajan, Hammel, Michal, Adams, Paul D, Scheller, Henrik V, Urbanowicz, Breeanna R
Published in Nature plants (01.03.2023)
Published in Nature plants (01.03.2023)
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Journal Article
A Synthetic Gene Library Yields a Previously Unknown Glycoside Phosphorylase That Degrades and Assembles Poly-β-1,3-GlcNAc, Completing the Suite of β‑Linked GlcNAc Polysaccharides
Macdonald, Spencer S, Pereira, Jose H, Liu, Feng, Tegl, Gregor, DeGiovanni, Andy, Wardman, Jacob F, Deutsch, Samuel, Yoshikuni, Yasuo, Adams, Paul D, Withers, Stephen G
Published in ACS central science (27.04.2022)
Published in ACS central science (27.04.2022)
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Journal Article
An iron (II) dependent oxygenase performs the last missing step of plant lysine catabolism
Thompson, Mitchell G, Blake-Hedges, Jacquelyn M, Pereira, Jose Henrique, Hangasky, John A, Belcher, Michael S, Moore, William M, Barajas, Jesus F, Cruz-Morales, Pablo, Washington, Lorenzo J, Haushalter, Robert W, Eiben, Christopher B, Liu, Yuzhong, Skyrud, Will, Benites, Veronica T, Barnum, Tyler P, Baidoo, Edward E K, Scheller, Henrik V, Marletta, Michael A, Shih, Patrick M, Adams, Paul D, Keasling, Jay D
Published in Nature communications (10.06.2020)
Published in Nature communications (10.06.2020)
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Journal Article
Addition of a carbohydrate-binding module enhances cellulase penetration into cellulose substrates
Reyes-Ortiz, Vimalier, Heins, Richard A, Cheng, Gang, Kim, Edward Y, Vernon, Briana C, Elandt, Ryan B, Adams, Paul D, Sale, Kenneth L, Hadi, Masood Z, Simmons, Blake A, Kent, Michael S, Tullman-Ercek, Danielle
Published in Biotechnology for biofuels (03.07.2013)
Published in Biotechnology for biofuels (03.07.2013)
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Journal Article
Phylogenomically Guided Identification of Industrially Relevant GH1 β‑Glucosidases through DNA Synthesis and Nanostructure-Initiator Mass Spectrometry
Heins, Richard A, Cheng, Xiaoliang, Nath, Sangeeta, Deng, Kai, Bowen, Benjamin P, Chivian, Dylan C, Datta, Supratim, Friedland, Gregory D, D’Haeseleer, Patrik, Wu, Dongying, Tran-Gyamfi, Mary, Scullin, Chessa S, Singh, Seema, Shi, Weibing, Hamilton, Matthew G, Bendall, Matthew L, Sczyrba, Alexander, Thompson, John, Feldman, Taya, Guenther, Joel M, Gladden, John M, Cheng, Jan-Fang, Adams, Paul D, Rubin, Edward M, Simmons, Blake A, Sale, Kenneth L, Northen, Trent R, Deutsch, Samuel
Published in ACS chemical biology (19.09.2014)
Published in ACS chemical biology (19.09.2014)
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Journal Article
A Switch I Mutant of Cdc42 Exhibits Less Conformational Freedom
Chandrashekar, Reena, Salem, Omar, Krizova, Hana, McFeeters, Robert, Adams, Paul D
Published in Biochemistry (Easton) (19.07.2011)
Published in Biochemistry (Easton) (19.07.2011)
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Journal Article
From deep TLS validation to ensembles of atomic models built from elemental motions
Urzhumtsev, Alexandre, Afonine, Pavel V., Van Benschoten, Andrew H., Fraser, James S., Adams, Paul D.
Published in Acta crystallographica. Section D, Biological crystallography. (01.08.2015)
Published in Acta crystallographica. Section D, Biological crystallography. (01.08.2015)
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Journal Article