Correction: In Silico Generation of Peptides by Replica Exchange Monte Carlo: Docking-Based Optimization of Maltose-Binding-Protein Ligands
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G. Scoles | A. Giordano | R. Grandori | Sara Fortuna | D. Marasco | C. Santambrogio | P. L. Scognamiglio | Anna Russo | R. P. Hong Enriquez
[1] Anna Russo,et al. In Silico Generation of Peptides by Replica Exchange Monte Carlo: Docking-Based Optimization of Maltose-Binding-Protein Ligands , 2015, PloS one.
[2] Gevorg Grigoryan,et al. Computational design of selective peptides to discriminate between similar PDZ domains in an oncogenic pathway. , 2015, Journal of molecular biology.
[3] L. Vitagliano,et al. G-quadruplex DNA recognition by nucleophosmin: new insights from protein dissection. , 2014, Biochimica et biophysica acta.
[4] Nir London,et al. Peptide docking and structure-based characterization of peptide binding: from knowledge to know-how. , 2013, Current opinion in structural biology.
[5] M. Williamson. Using chemical shift perturbation to characterise ligand binding. , 2013, Progress in nuclear magnetic resonance spectroscopy.
[6] C. Vascotto,et al. Role of the unstructured N-terminal domain of the hAPE1 (human apurinic/apyrimidinic endonuclease 1) in the modulation of its interaction with nucleic acids and NPM1 (nucleophosmin). , 2013, The Biochemical journal.
[7] Z. Altintas,et al. Computational Design of Peptide Ligands for Ochratoxin A , 2013, Toxins.
[8] Chao Yang,et al. Computational peptidology: a new and promising approach to therapeutic peptide design. , 2013, Current medicinal chemistry.
[9] A. Laio,et al. Designing Short Peptides with High Affinity for Organic Molecules: A Combined Docking, Molecular Dynamics, And Monte Carlo Approach. , 2012, Journal of chemical theory and computation.
[10] Claudio N. Cavasotto,et al. Computational and experimental studies of the interaction between phospho-peptides and the C-terminal domain of BRCA1 , 2011, J. Comput. Aided Mol. Des..
[11] Haim J. Wolfson,et al. PepCrawler: a fast RRT-based algorithm for high-resolution refinement and binding affinity estimation of peptide inhibitors , 2011, Bioinform..
[12] Ora Schueler-Furman,et al. Identification of a Novel Class of Farnesylation Targets by Structure-Based Modeling of Binding Specificity , 2011, PLoS Comput. Biol..
[13] Ora Schueler-Furman,et al. Rosetta FlexPepDock web server—high resolution modeling of peptide–protein interactions , 2011, Nucleic Acids Res..
[14] James Andrew McCammon,et al. Accessing a Hidden Conformation of the Maltose Binding Protein Using Accelerated Molecular Dynamics , 2011, PLoS Comput. Biol..
[15] Xiaoqin Zou,et al. Scoring functions and their evaluation methods for protein-ligand docking: recent advances and future directions. , 2010, Physical chemistry chemical physics : PCCP.
[16] Tanja Kortemme,et al. Structure-based prediction of the peptide sequence space recognized by natural and synthetic PDZ domains. , 2010, Journal of molecular biology.
[17] Alessandro Troisi,et al. Agent-based modeling for the 2D molecular self-organization of realistic molecules. , 2010, The journal of physical chemistry. B.
[18] Nir London,et al. Sub‐angstrom modeling of complexes between flexible peptides and globular proteins , 2010, Proteins.
[19] Alessandro Troisi,et al. An artificial intelligence approach for modeling molecular self-assembly: agent-based simulations of rigid molecules. , 2009, The journal of physical chemistry. B.
[20] Arthur J. Olson,et al. AutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading , 2009, J. Comput. Chem..
[21] G. Fields,et al. Solid phase peptide synthesis utilizing 9-fluorenylmethoxycarbonyl amino acids. , 2009, International journal of peptide and protein research.
[22] R. Grandori,et al. Electrospray‐ionization mass spectrometry as a tool for fast screening of protein structural properties , 2009, Biotechnology journal.
[23] Koichi Abe,et al. Peptide ligand screening of α-synuclein aggregation modulators by in silico panning , 2007, BMC Bioinformatics.
[24] Kotaro Terada,et al. In silico panning for a non-competitive peptide inhibitor , 2007, BMC Bioinformatics.
[25] Xavier Llorà,et al. ENPDA: an evolutionary structure-based de novo peptide design algorithm , 2005, J. Comput. Aided Mol. Des..
[26] Thomas Stockner,et al. A salt-bridge motif involved in ligand binding and large-scale domain motions of the maltose-binding protein. , 2005, Biophysical journal.
[27] Luís Carlos de Souza Ferreira,et al. Purification and in vitro characterization of the maltose-binding protein of the plant pathogen Xanthomonas citri. , 2005, Protein expression and purification.
[28] David J. Earl,et al. Parallel tempering: theory, applications, and new perspectives. , 2005, Physical chemistry chemical physics : PCCP.
[29] Yi Li,et al. Directed evolution of human T-cell receptors with picomolar affinities by phage display , 2005, Nature Biotechnology.
[30] Honglin Li,et al. GAsDock: a new approach for rapid flexible docking based on an improved multi-population genetic algorithm. , 2004, Bioorganic & medicinal chemistry letters.
[31] B. Shilton,et al. Insights into the Conformational Equilibria of Maltose-binding Protein by Analysis of High Affinity Mutants* , 2003, Journal of Biological Chemistry.
[32] Igor L. Medintz,et al. A fluorescence resonance energy transfer sensor based on maltose binding protein. , 2003, Bioconjugate chemistry.
[33] C. Dominguez,et al. HADDOCK: a protein-protein docking approach based on biochemical or biophysical information. , 2003, Journal of the American Chemical Society.
[34] Y. Sugita,et al. Replica-exchange molecular dynamics method for protein folding , 1999 .
[35] J. Tame,et al. Crystallographic and calorimetric analysis of peptide binding to OppA protein. , 1999, Journal of molecular biology.
[36] K. Nishikawa,et al. Domain dislocation: a change of core structure in periplasmic binding proteins in their evolutionary history. , 1999, Journal of molecular biology.
[37] C. Hovens,et al. Mutagenesis and selection of PDZ domains that bind new protein targets , 1999, Nature Biotechnology.
[38] M. Moret,et al. Stochastic molecular optimization using generalized simulated annealing , 1998, J. Comput. Chem..
[39] F A Quiocho,et al. Extensive features of tight oligosaccharide binding revealed in high-resolution structures of the maltodextrin transport/chemosensory receptor. , 1997, Structure.
[40] G. Mei,et al. Spectroscopic properties of an engineered maltose binding protein. , 1997, Protein engineering.
[41] K. Ho,et al. Structural optimization of Lennard-Jones clusters by a genetic algorithm , 1996 .
[42] F. Quiocho,et al. Atomic structure and specificity of bacterial periplasmic receptors for active transport and chemotaxis: variation of common themes , 1996, Molecular microbiology.
[43] D. M. Deaven,et al. Molecular geometry optimization with a genetic algorithm. , 1995, Physical review letters.
[44] T. Blundell,et al. Comparative protein modelling by satisfaction of spatial restraints. , 1993, Journal of molecular biology.
[45] F. Quiocho,et al. Crystallographic evidence of a large ligand-induced hinge-twist motion between the two domains of the maltodextrin binding protein involved in active transport and chemotaxis. , 1992, Biochemistry.
[46] J. Scott,et al. Searching for peptide ligands with an epitope library. , 1990, Science.
[47] Michele Parrinello,et al. Structure of sulfur clusters using simulated annealing: S2 to S13 , 1988 .
[48] P. B. Carter,et al. Monoclonal antibodies. Clinical uses and potential. , 1986, The Veterinary clinics of North America. Small animal practice.
[49] F A Quiocho,et al. Rates of ligand binding to periplasmic proteins involved in bacterial transport and chemotaxis. , 1983, The Journal of biological chemistry.
[50] C. D. Gelatt,et al. Optimization by Simulated Annealing , 1983, Science.
[51] T. S. Lim,et al. Phage Display , 2018, Methods in Molecular Biology.
[52] M. Becker,et al. Antibodies A Laboratory Manual , 2016 .
[53] B Catimel,et al. Design of inhibitors of Ras--Raf interaction using a computational combinatorial algorithm. , 2001, Protein engineering.
[54] T. Kodadek,et al. Selection and application of peptide-binding peptides , 2000, Nature Biotechnology.
[55] H. Ball,et al. Diagnostic application of monoclonal antibody (MAb)-based sandwich ELISAs. , 1998, Methods in molecular biology.
[56] M. Goldberg,et al. Methods for measurement of antibody/antigen affinity based on ELISA and RIA. , 1993, Current opinion in immunology.