Related references
Note: Only part of the references are listed.Protein loop closure using orientational restraints from NMR data
Chittaranjan Tripathy et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2012)
The Role of Local Backrub Motions in Evolved and Designed Mutations
Daniel A. Keedy et al.
PLOS COMPUTATIONAL BIOLOGY (2012)
Computational Design of a PDZ Domain Peptide Inhibitor that Rescues CFTR Activity
Kyle E. Roberts et al.
PLOS COMPUTATIONAL BIOLOGY (2012)
Protein Design Using Continuous Rotamers
Pablo Gainza et al.
PLOS COMPUTATIONAL BIOLOGY (2012)
Computational Design and Experimental Testing of the Fastest-Folding β-Sheet Protein
Stefano Piana et al.
JOURNAL OF MOLECULAR BIOLOGY (2011)
Accounting for conformational entropy in predicting binding free energies of protein-protein interactions
Hetunandan Kamisetty et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2011)
A New Generation of Crystallographic Validation Tools for the Protein Data Bank
Randy J. Read et al.
STRUCTURE (2011)
Predicting resistance mutations using protein design algorithms
Kathleen M. Frey et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2010)
Computational structure-based redesign of enzyme activity
Cheng-Yu Chen et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2009)
KiNG (Kinemage, Next Generation): A versatile interactive molecular and scientific visualization program
Vincent B. Chen et al.
PROTEIN SCIENCE (2009)
The crystal structures of the psychrophilic subtilisin S41 and the mesophilic subtilisin Sph reveal the same calcium-loaded state
Orna Almog et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2009)
Macromolecular modeling with Rosetta
Rhiju Das et al.
ANNUAL REVIEW OF BIOCHEMISTRY (2008)
Algorithm for backrub motions in protein design
Ivelin Georgiev et al.
BIOINFORMATICS (2008)
An improved pairwise decomposable finite-difference Poisson-Boltzmann method for computational protein design
Christina L. Vizcarra et al.
JOURNAL OF COMPUTATIONAL CHEMISTRY (2008)
The minimized dead-end elimination criterion and its application to protein redesign in a hybrid scoring and search algorithm for computing partition functions over molecular ensembles
Ivelin Georgiev et al.
JOURNAL OF COMPUTATIONAL CHEMISTRY (2008)
Backrub-like backbone simulation recapitulates natural protein conformational variability and improves mutant side-chain prediction
Colin A. Smith et al.
JOURNAL OF MOLECULAR BIOLOGY (2008)
Matt: Local flexibility aids protein multiple structure alignment
Matthew Menke et al.
PLOS COMPUTATIONAL BIOLOGY (2008)
Dead-end elimination for multistate protein design
Chen Yanover et al.
JOURNAL OF COMPUTATIONAL CHEMISTRY (2007)
Allosteric inhibition of the protein-protein interaction between the leukemia-associated proteins Runx1 and CBFβ
Michael J. Gorczynski et al.
CHEMISTRY & BIOLOGY (2007)
Progress in computational protein design
Shaun M. Lippow et al.
CURRENT OPINION IN BIOTECHNOLOGY (2007)
Conformational entropy in molecular recognition by proteins
Kendra King Frederick et al.
NATURE (2007)
Dead-end elimination with backbone flexibility
Ivelin Georgiev et al.
BIOINFORMATICS (2007)
Fast and accurate algorithms for protein side-chain packing
Jinbo Xu et al.
JOURNAL OF THE ACM (2006)
Improved Pruning algorithms and Divide-and-Conquer strategies for Dead-End Elimination, with application to protein design
Ivelin Georgiev et al.
BIOINFORMATICS (2006)
The backrub motion: How protein backbone shrugs when a sidechain dances
IW Davis et al.
STRUCTURE (2006)
A novel ensemble-based scoring and search algorithm for protein redesign and its application to modify the substrate specificity of the gramicidin synthetase a phenylalanine adenylation enzyme
RH Lilien et al.
JOURNAL OF COMPUTATIONAL BIOLOGY (2005)
Improved side-chain modeling for protein-protein docking
C Wang et al.
PROTEIN SCIENCE (2005)
The flexibility in the proline ring couples to the protein backbone
BK Ho et al.
PROTEIN SCIENCE (2005)
Ab initio simulations of protein-folding pathways by molecular dynamics with the united-residue model of polypeptide chains
A Liwo et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2005)
Ab initio prediction of the three-dimensional structure of a de novo designed protein: A double-blind case study
JL Klepeis et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2005)
Conformational flexibility of PEP mutase
SJ Liu et al.
BIOCHEMISTRY (2004)
A kinematic view of loop closure
EA Coutsias et al.
JOURNAL OF COMPUTATIONAL CHEMISTRY (2004)
Molecular structure of proline
WD Allen et al.
CHEMISTRY-A EUROPEAN JOURNAL (2004)
A semidefinite programming approach to side chain positioning with new rounding strategies
B Chazelle et al.
INFORMS JOURNAL ON COMPUTING (2004)
Design of a novel globular protein fold with atomic-level accuracy
B Kuhlman et al.
SCIENCE (2003)
Rotation of the stalk/neck and one head in a new crystal structure of the kinesin motor protein, Ncd
M Yun et al.
EMBO JOURNAL (2003)
Structure validation by Cα geometry:: φ,ψ and Cβ deviation
SC Lovell et al.
PROTEINS-STRUCTURE FUNCTION AND GENETICS (2003)
Exact rotamer optimization for protein design
DB Gordon et al.
JOURNAL OF COMPUTATIONAL CHEMISTRY (2003)
Protein design is NP-hard
NA Pierce et al.
PROTEIN ENGINEERING (2002)
Fast and Accurate Side-Chain Topology and Energy Refinement (FASTER) as a new method for protein structure optimization
J Desmet et al.
PROTEINS-STRUCTURE FUNCTION AND GENETICS (2002)
Native protein sequences are close to optimal for their structures
B Kuhlman et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2000)
Share Paper
