Biblio

Found 31 results
Filters: Keyword is Models, Molecular  [Clear All Filters]
2020
Yang J, Naik N, Patel JSuresh, Wylie CS, Gu W, Huang J, F Ytreberg M, Naik MT, Weinreich DM, Rubenstein BM.  2020.  Predicting the viability of beta-lactamase: How folding and binding free energies correlate with beta-lactamase fitness.. PLoS One. 15(5):e0233509.
2019
Reyes-Espinosa F, Juárez-Saldivar A, Palos I, Herrera-Mayorga V, García-Pérez C, Rivera G.  2019.  In Silico Analysis of Homologous Heterodimers of Cruzipain-Chagasin from Structural Models Built by Homology.. Int J Mol Sci. 20(6)
2017
Tomar JSingh, Peddinti RKrishna.  2017.  A. baumannii histone acetyl transferase Hpa2: optimization of homology modeling, analysis of protein-protein interaction and virtual screening.. J Biomol Struct Dyn. 35(5):1115-1126.
Xiong P, Zhang C, Zheng W, Zhang Y.  2017.  BindProfX: Assessing Mutation-Induced Binding Affinity Change by Protein Interface Profiles with Pseudo-Counts.. J Mol Biol. 429(3):426-434.
Jones BJ, Lim HYee, Huang J, Kazlauskas RJ.  2017.  Comparison of Five Protein Engineering Strategies for Stabilizing an α/β-Hydrolase.. Biochemistry. 56(50):6521-6532.
Nosrati M, Solbak S, Nordesjö O, Nissbeck M, Dourado DFAR, Andersson KG, Housaindokht MReza, Löfblom J, Virtanen A, U Danielson H et al..  2017.  Insights from engineering the Affibody-Fc interaction with a computational-experimental method.. Protein Eng Des Sel. 30(9):593-601.
Carlin DAlexander, Hapig-Ward S, Chan BWayne, Damrau N, Riley M, Caster RW, Bethards B, Siegel JB.  2017.  Thermal stability and kinetic constants for 129 variants of a family 1 glycoside hydrolase reveal that enzyme activity and stability can be separately designed.. PLoS One. 12(5):e0176255.
2016
Sulea T, Vivcharuk V, Corbeil CR, Deprez C, Purisima EO.  2016.  Assessment of Solvated Interaction Energy Function for Ranking Antibody-Antigen Binding Affinities.. J Chem Inf Model. 56(7):1292-303.
Van Durme J, De Baets G, Van Der Kant R, Ramakers M, Ganesan A, Wilkinson H, Gallardo R, Rousseau F, Schymkowitz J.  2016.  Solubis: a webserver to reduce protein aggregation through mutation.. Protein Eng Des Sel. 29(8):285-9.
2015
Liu Q, Ren J, Song J, Li J.  2015.  Co-Occurring Atomic Contacts for the Characterization of Protein Binding Hot Spots.. PLoS One. 10(12):e0144486.
erný JČ, Biedermannová L, Mikulecký P, Zahradník J, Charnavets T, ebo PŠ, Schneider B.  2015.  Redesigning protein cavities as a strategy for increasing affinity in protein-protein interaction: interferon- γ receptor 1 as a model.. Biomed Res Int. 2015:716945.
2014
Xi Y, Wu X, Gao L, Shao Y, Peng H, Chen H, Chen H, Hu X, Yue J.  2014.  Improving the anti-toxin abilities of the CMG2-Fc fusion protein with the aid of computational design.. PLoS One. 9(8):e104674.
Liu Q, Hoi SCH, Kwoh CKeong, Wong L, Li J.  2014.  Integrating water exclusion theory into β contacts to predict binding free energy changes and binding hot spots.. BMC Bioinformatics. 15:57.
2012
Kimberley FC, van der Sloot AM, Guadagnoli M, Cameron K, Schneider P, Marquart AJ, Versloot M, Serrano L, Medema J P.  2012.  The design and characterization of receptor-selective APRIL variants.. J Biol Chem. 287(44):37434-46.
Simões-Correia J, Figueiredo J, Lopes R, Stricher F, Oliveira C, Serrano L, Seruca R.  2012.  E-cadherin destabilization accounts for the pathogenicity of missense mutations in hereditary diffuse gastric cancer.. PLoS One. 7(3):e33783.
2011
Vanhee P, Verschueren E, Baeten L, Stricher F, Serrano L, Rousseau F, Schymkowitz J.  2011.  BriX: a database of protein building blocks for structural analysis, modeling and design.. Nucleic Acids Res. 39(Database issue):D435-42.
Verschueren E, Vanhee P, van der Sloot AM, Serrano L, Rousseau F, Schymkowitz J.  2011.  Protein design with fragment databases.. Curr Opin Struct Biol. 21(4):452-9.
2008
Tokuriki N, Stricher F, Serrano L, Tawfik DS.  2008.  How protein stability and new functions trade off.. PLoS Comput Biol. 4(2):e1000002.
Baeten L, Reumers J, Tur V, Stricher F, Lenaerts T, Serrano L, Rousseau F, Schymkowitz J.  2008.  Reconstruction of protein backbones from the BriX collection of canonical protein fragments.. PLoS Comput Biol. 4(5):e1000083.
2007
Kiel C, Serrano L.  2007.  Prediction of Ras-effector interactions using position energy matrices.. Bioinformatics. 23(17):2226-30.
2006
Kempkens O, Médina E, Fernandez-Ballester G, Ozüyaman S, Le Bivic A, Serrano L, Knust E.  2006.  Computer modelling in combination with in vitro studies reveals similar binding affinities of Drosophila Crumbs for the PDZ domains of Stardust and DmPar-6.. Eur J Cell Biol. 85(8):753-67.
van der Sloot AM, Tur V, Szegezdi E, Mullally MM, Cool RH, Samali A, Serrano L, Quax WJ.  2006.  Designed tumor necrosis factor-related apoptosis-inducing ligand variants initiating apoptosis exclusively via the DR5 receptor.. Proc Natl Acad Sci U S A. 103(23):8634-9.
Arnould S, Chames P, Perez C, Lacroix E, Duclert A, Epinat J-C, Stricher F, Petit A-S, Patin A, Guillier S et al..  2006.  Engineering of large numbers of highly specific homing endonucleases that induce recombination on novel DNA targets.. J Mol Biol. 355(3):443-58.
Musi V, Birdsall B, Fernandez-Ballester G, Guerrini R, Salvatori S, Serrano L, Pastore A.  2006.  New approaches to high-throughput structure characterization of SH3 complexes: the example of Myosin-3 and Myosin-5 SH3 domains from S. cerevisiae.. Protein Sci. 15(4):795-807.
Kiel C, Serrano L.  2006.  The ubiquitin domain superfold: structure-based sequence alignments and characterization of binding epitopes.. J Mol Biol. 355(4):821-44.