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Juan Esquivel-Rodriguez
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Prediction of homoprotein and heteroprotein complexes by protein docking and template‐based modeling: A CASP‐CAPRI experiment
MF Lensink, S Velankar, A Kryshtafovych, SY Huang, ...
Proteins: Structure, Function, and Bioinformatics 84 (S1), 323-348, 2016
1662016
Community-wide assessment of protein-interface modeling suggests improvements to design methodology
SJ Fleishman, TA Whitehead, EM Strauch, JE Corn, S Qin, HX Zhou, ...
Journal of molecular biology 414 (2), 289-302, 2011
1582011
Community‐wide evaluation of methods for predicting the effect of mutations on protein–protein interactions
R Moretti, SJ Fleishman, R Agius, M Torchala, PA Bates, PL Kastritis, ...
Proteins: Structure, Function, and Bioinformatics 81 (11), 1980-1987, 2013
1122013
Molecular surface representation using 3D Zernike descriptors for protein shape comparison and docking
D Kihara, L Sael, R Chikhi, J Esquivel-Rodriguez
Current Protein and Peptide Science 12 (6), 520-530, 2011
1082011
Multi‐LZerD: Multiple protein docking for asymmetric complexes
J Esquivel‐Rodríguez, YD Yang, D Kihara
Proteins: Structure, Function, and Bioinformatics 80 (7), 1818-1833, 2012
962012
3D-SURFER: software for high-throughput protein surface comparison and analysis
D La, J Esquivel-Rodríguez, V Venkatraman, B Li, L Sael, S Ueng, ...
Bioinformatics 25 (21), 2843-2844, 2009
902009
Tuning of Pectin Methylesterification PECTIN METHYLESTERASE INHIBITOR 7 MODULATES THE PROCESSIVE ACTIVITY OF CO-EXPRESSED PECTIN METHYLESTERASE 3 IN A pH-DEPENDENT MANNER
F Sénéchal, M L'Enfant, JM Domon, E Rosiau, MJ Crépeau, O Surcouf, ...
Journal of Biological Chemistry 290 (38), 23320-23335, 2015
612015
Pairwise and Multimeric Protein–Protein Docking Using the LZerD Program Suite
J Esquivel-Rodriguez, V Filos-Gonzalez, B Li, D Kihara
Protein Structure Prediction, 209-234, 2014
482014
Fitting multimeric protein complexes into electron microscopy maps using 3D Zernike descriptors
J Esquivel-Rodríguez, D Kihara
The Journal of Physical Chemistry B 116 (23), 6854-6861, 2012
462012
Computational methods for constructing protein structure models from 3D electron microscopy maps
J Esquivel-Rodríguez, D Kihara
Journal of structural biology 184 (1), 93-102, 2013
452013
Modeling the assembly order of multimeric heteroprotein complexes
LX Peterson, Y Togawa, J Esquivel-Rodriguez, G Terashi, C Christoffer, ...
PLoS computational biology 14 (1), e1005937, 2018
342018
Ranking protein–protein docking results using steered molecular dynamics and potential of mean force calculations
LJ Kingsley, J Esquivel‐Rodríguez, Y Yang, D Kihara, MA Lill
Journal of computational chemistry 37 (20), 1861-1865, 2016
292016
Navigating 3D electron microscopy maps with EM-SURFER
J Esquivel-Rodríguez, Y Xiong, X Han, S Guang, C Christoffer, D Kihara
BMC bioinformatics 16, 1-9, 2015
252015
Human and server docking prediction for CAPRI round 30‐35 using LZerD with combined scoring functions
LX Peterson, H Kim, J Esquivel‐Rodriguez, A Roy, X Han, WH Shin, ...
Proteins: Structure, Function, and Bioinformatics 85 (3), 513-527, 2017
192017
3D-SURFER 2.0: Web Platform for Real-Time Search and Characterization of Protein Surfaces
Y Xiong, J Esquivel-Rodriguez, L Sael, D Kihara
Protein Structure Prediction, 105-117, 2014
122014
Evaluation of multiple protein docking structures using correctly predicted pairwise subunits
J Esquivel-Rodríguez, D Kihara
BMC bioinformatics 13, 1-4, 2012
112012
Effect of conformation sampling strategies in genetic algorithm for multiple protein docking
J Esquivel-Rodríguez, D Kihara
BMC proceedings 6, 1-6, 2012
92012
EvoSeg: Automated Electron Microscopy Segmentation through Random Forests and Evolutionary Optimization
M Zumbado-Corrales, J Esquivel-Rodríguez
Biomimetics 6 (2), 37, 2021
52021
Graphical Models for Protein Function and Structure Prediction
M Tang, KM Tan, X Tan, L Sael, M Chitale, J Esquivel‐Rodríguez, ...
Biological Knowledge Discovery Handbook: Preprocessing, Mining, and …, 2014
52014
MarkovFit: Structure Fitting for Protein Complexes in Electron Microscopy Maps Using Markov Random Field
E Alnabati, J Esquivel-Rodriguez, G Terashi, D Kihara
Frontiers in Molecular Biosciences 9, 935411, 2022
32022
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