Publications by authors named "Tom Darden"

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The seventh blind test of crystal structure prediction: structure generation methods.
Lily M Hunnisett, Jonas Nyman, Nicholas Francia, Nathan S Abraham, Claire S Adjiman, Tom Darden

Acta Crystallogr B Struct Sci Cryst Eng Mater· December 2024

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The seventh blind test of crystal structure prediction: structure ranking methods.
Lily M Hunnisett, Nicholas Francia, Jonas Nyman, Nathan S Abraham, Srinivasulu Aitipamula, Tom Darden

Acta Crystallogr B Struct Sci Cryst Eng Mater· December 2024

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Outcome of the First wwPDB/CCDC/D3R Ligand Validation Workshop.
Paul D Adams, Kathleen Aertgeerts, Cary Bauer, Jeffrey A Bell, Helen M Berman, Tom Darden

Structure· April 2016

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Obligatory role in GTP hydrolysis for the amide carbonyl oxygen of the Mg(2+)-coordinating Thr of regulatory GTPases.
Adolfo Zurita, Yinghao Zhang, Lee Pedersen, Tom Darden, Lutz Birnbaumer

Proc Natl Acad Sci U S A· May 2010

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Gaussian induced dipole polarization model.
Dennis Elking, Tom Darden, Robert J Woods

J Comput Chem· May 2007

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The Amber biomolecular simulation programs.
David A Case, Thomas E Cheatham, Tom Darden, Holger Gohlke, Ray Luo

J Comput Chem· December 2005

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Making optimal use of empirical energy functions: force-field parameterization in crystal space.
Elmar Krieger, Tom Darden, Sander B Nabuurs, Alexei Finkelstein, Gert Vriend

Proteins· December 2004

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Mutations proximal to the minor groove-binding track of human immunodeficiency virus type 1 reverse transcriptase differentially affect utilization of RNA versus DNA as template.
Timothy S Fisher, Tom Darden, Vinayaka R Prasad

J Virol· May 2003

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Substitutions at Phe61 in the beta3-beta4 hairpin of HIV-1 reverse transcriptase reveal a role for the Fingers subdomain in strand displacement DNA synthesis.
Timothy S Fisher, Tom Darden, Vinayaka R Prasad

J Mol Biol· January 2003

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Explicit water near the catalytic I helix Thr in the predicted solution structure of CYP2A4.
Anna Gorokhov, Masahiko Negishi, Eric F Johnson, Lars C Pedersen, Lalith Perera, Tom A Darden

Biophys J· January 2003

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Structure and dynamics of zymogen human blood coagulation factor X.
Divi Venkateswarlu, Lalith Perera, Tom Darden, Lee G Pedersen

Biophys J· March 2002

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