| Year |
Citation |
Score |
| 2022 |
López-Blanco JR, Dehouck Y, Bastolla U, Chacón P. Local Normal Mode Analysis for Fast Loop Conformational Sampling. Journal of Chemical Information and Modeling. 62: 4561-4568. PMID 36099639 DOI: 10.1021/acs.jcim.2c00870 |
0.375 |
|
| 2020 |
Kadukova M, Machado KDS, Chacón P, Grudinin S. KORP-PL: a coarse-grained knowledge-based scoring function for protein-ligand interactions. Bioinformatics (Oxford, England). PMID 32840574 DOI: 10.1093/Bioinformatics/Btaa748 |
0.346 |
|
| 2019 |
Ramón López-Blanco J, Chacón P. KORP: Knowledge-based 6D potential for fast protein and loop modeling. Bioinformatics (Oxford, England). PMID 30649193 DOI: 10.1093/Bioinformatics/Btz026 |
0.361 |
|
| 2017 |
Tenthorey JL, Haloupek N, López-Blanco JR, Grob P, Adamson E, Hartenian E, Lind NA, Bourgeois NM, Chacón P, Nogales E, Vance RE. The structural basis of flagellin detection by NAIP5: A strategy to limit pathogen immune evasion. Science (New York, N.Y.). 358: 888-893. PMID 29146805 DOI: 10.1126/Science.Aao1140 |
0.51 |
|
| 2017 |
Artola M, Ruíz-Avila LB, Ramírez-Aportela E, Martínez RF, Araujo-Bazán L, Vázquez-Villa H, Martín-Fontecha M, Oliva MA, Martín-Galiano AJ, Chacón P, López-Rodríguez ML, Andreu JM, Huecas S. The structural assembly switch of cell division protein FtsZ probed with fluorescent allosteric inhibitors. Chemical Science. 8: 1525-1534. PMID 28616148 DOI: 10.1039/C6Sc03792E |
0.329 |
|
| 2016 |
Kellogg EH, Howes S, Ti SC, Ramírez-Aportela E, Kapoor TM, Chacón P, Nogales E. Near-atomic cryo-EM structure of PRC1 bound to the microtubule. Proceedings of the National Academy of Sciences of the United States of America. PMID 27493215 DOI: 10.1073/Pnas.1609903113 |
0.527 |
|
| 2016 |
Ramírez-Aportela E, López-Blanco JR, Chacón P. FRODOCK 2.0: fast protein-protein docking server. Bioinformatics (Oxford, England). PMID 27153583 DOI: 10.1093/Bioinformatics/Btw141 |
0.356 |
|
| 2016 |
López-Blanco JR, Canosa-Valls AJ, Li Y, Chacón P. RCD+: Fast loop modeling server. Nucleic Acids Research. PMID 27151199 DOI: 10.1093/Nar/Gkw395 |
0.363 |
|
| 2016 |
Louder RK, He Y, López-Blanco JR, Fang J, Chacón P, Nogales E. Corrigendum: Structure of promoter-bound TFIID and model of human pre-initiation complex assembly. Nature. PMID 27096372 DOI: 10.1038/Nature17984 |
0.492 |
|
| 2016 |
Louder RK, He Y, López-Blanco JR, Fang J, Chacón P, Nogales E. Structure of promoter-bound TFIID and model of human pre-initiation complex assembly. Nature. PMID 27007846 DOI: 10.1038/Nature17394 |
0.51 |
|
| 2016 |
López-Blanco JR, Chacón P. New generation of elastic network models. Current Opinion in Structural Biology. 37: 46-53. PMID 26716577 DOI: 10.1016/J.Sbi.2015.11.013 |
0.45 |
|
| 2016 |
Aliaga JI, Alonso P, Badía JM, Chacón P, Davidović D, López-Blanco JR, Quintana-Ortí ES. A fast band-Krylov eigensolver for macromolecular functional motion simulation on multicore architectures and graphics processors Journal of Computational Physics. 309: 314-323. DOI: 10.1016/J.Jcp.2016.01.007 |
0.345 |
|
| 2015 |
Ramírez-Aportela E, López-Blanco JR, Andreu JM, Chacon P. Molecular Dynamics and Assembly Switch of FtsZ Filaments Biophysical Journal. 108: 5-7. DOI: 10.1016/J.Bpj.2014.11.2889 |
0.365 |
|
| 2015 |
Canosa-Valls AJ, Ramírez-Aportela E, Chacón P, López-Blanco JR. Integrative Modeling Approaches to Interpret High-Resolution cryo-EM Reconstructions Biophysical Journal. 108. DOI: 10.1016/J.Bpj.2014.11.2582 |
0.383 |
|
| 2015 |
López-Blanco JR, Chacón P. Structural modeling from electron microscopy data Wiley Interdisciplinary Reviews: Computational Molecular Science. 5: 62-81. DOI: 10.1002/Wcms.1199 |
0.371 |
|
| 2014 |
Ramírez-Aportela E, López-Blanco JR, Andreu JM, Chacón P. Understanding nucleotide-regulated FtsZ filament dynamics and the monomer assembly switch with large-scale atomistic simulations. Biophysical Journal. 107: 2164-76. PMID 25418101 DOI: 10.1016/J.Bpj.2014.09.033 |
0.377 |
|
| 2014 |
López-Blanco JR, Aliaga JI, Quintana-Ortí ES, Chacón P. iMODS: internal coordinates normal mode analysis server. Nucleic Acids Research. 42: W271-6. PMID 24771341 DOI: 10.1093/Nar/Gku339 |
0.555 |
|
| 2014 |
Krüger DM, Ignacio Garzón J, Chacón P, Gohlke H. DrugScorePPI knowledge-based potentials used as scoring and objective function in protein-protein docking. Plos One. 9: e89466. PMID 24586799 DOI: 10.1371/Journal.Pone.0089466 |
0.335 |
|
| 2014 |
López-Blanco JR, Ramirez E, Garcia S, Chacon P. Imods: Fast Exploration of Macromolecular Collective Motions Biophysical Journal. 106. DOI: 10.1016/J.Bpj.2013.11.3614 |
0.624 |
|
| 2013 |
Chys P, Chacón P. Random Coordinate Descent with Spinor-matrices and Geometric Filters for Efficient Loop Closure. Journal of Chemical Theory and Computation. 9: 1821-9. PMID 26587638 DOI: 10.1021/Ct300977F |
0.317 |
|
| 2013 |
Lopéz-Blanco JR, Chacón P. iMODFIT: efficient and robust flexible fitting based on vibrational analysis in internal coordinates. Journal of Structural Biology. 184: 261-70. PMID 23999189 DOI: 10.1016/J.Jsb.2013.08.010 |
0.407 |
|
| 2013 |
Estrin E, Lopez-Blanco JR, Chacón P, Martin A. Formation of an intricate helical bundle dictates the assembly of the 26S proteasome lid. Structure (London, England : 1993). 21: 1624-35. PMID 23911091 DOI: 10.1016/J.Str.2013.06.023 |
0.339 |
|
| 2013 |
López-Blanco JR, Reyes R, Aliaga JI, Badia RM, Chacón P, Quintana-Ortí ES. Exploring large macromolecular functional motions on clusters of multicore processors Journal of Computational Physics. 246: 275-288. DOI: 10.1016/J.Jcp.2013.03.032 |
0.453 |
|
| 2013 |
Lopez-Blanco JR, Ramirez E, Garcia S, Chacon P. Exploring Macromolecular Machine Motions Biophysical Journal. 104. DOI: 10.1016/J.Bpj.2012.11.418 |
0.623 |
|
| 2012 |
Chys P, Chacón P. Spinor product computations for protein conformations. Journal of Computational Chemistry. 33: 1717-29. PMID 22565650 DOI: 10.1002/Jcc.23002 |
0.373 |
|
| 2012 |
Schaffner-Barbero C, Martín-Fontecha M, Chacón P, Andreu JM. Targeting the assembly of bacterial cell division protein FtsZ with small molecules. Acs Chemical Biology. 7: 269-77. PMID 22047077 DOI: 10.1021/Cb2003626 |
0.316 |
|
| 2012 |
Henriksson KOE, Pesonen J, Chacon P. Curvilinear Dynamics Of Protein Complexes Journal of Theoretical and Computational Chemistry. 11: 675-696. DOI: 10.1142/S0219633612500459 |
0.378 |
|
| 2012 |
Lopez-Blanco JR, Ramirez-Aportela E, Garcia-Sanchez S, Chys P, Chacon P. Modeling Macromolecular Flexibility with Normal Mode Analysis in Internal Coordinates Biophysical Journal. 102: 3-4. DOI: 10.1016/J.Bpj.2011.11.2155 |
0.497 |
|
| 2012 |
Pesonen J, Henriksson KOE, López-Blanco JR, Chacón P. Normal mode analysis of molecular motions in curvilinear coordinates on a non-Eckart body-frame: an application to protein torsion dynamics Journal of Mathematical Chemistry. 50: 1521-1549. DOI: 10.1007/S10910-012-9987-8 |
0.474 |
|
| 2011 |
Lopéz-Blanco JR, Garzón JI, Chacón P. iMod: multipurpose normal mode analysis in internal coordinates. Bioinformatics (Oxford, England). 27: 2843-50. PMID 21873636 DOI: 10.1093/Bioinformatics/Btr497 |
0.415 |
|
| 2010 |
Orellana L, Rueda M, Ferrer-Costa C, Lopez-Blanco JR, Chacón P, Orozco M. Approaching Elastic Network Models to Molecular Dynamics Flexibility. Journal of Chemical Theory and Computation. 6: 2910-23. PMID 26616090 DOI: 10.1021/Ct100208E |
0.467 |
|
| 2009 |
Garzon JI, Lopéz-Blanco JR, Pons C, Kovacs J, Abagyan R, Fernandez-Recio J, Chacon P. FRODOCK: a new approach for fast rotational protein-protein docking. Bioinformatics (Oxford, England). 25: 2544-51. PMID 19620099 DOI: 10.1093/Bioinformatics/Btp447 |
0.381 |
|
| 2008 |
Torreira E, Jha S, López-Blanco JR, Arias-Palomo E, Chacón P, Cañas C, Ayora S, Dutta A, Llorca O. Architecture of the pontin/reptin complex, essential in the assembly of several macromolecular complexes. Structure (London, England : 1993). 16: 1511-20. PMID 18940606 DOI: 10.1016/J.Str.2008.08.009 |
0.382 |
|
| 2007 |
Rueda M, Chacón P, Orozco M. Thorough validation of protein normal mode analysis: a comparative study with essential dynamics. Structure (London, England : 1993). 15: 565-75. PMID 17502102 DOI: 10.1016/J.Str.2007.03.013 |
0.404 |
|
| 2007 |
Garzón JI, Kovacs J, Abagyan R, Chacón P. DFprot: a webtool for predicting local chain deformability. Bioinformatics (Oxford, England). 23: 901-2. PMID 17277334 DOI: 10.1093/Bioinformatics/Btm014 |
0.388 |
|
| 2007 |
Garzón JI, Kovacs J, Abagyan R, Chacón P. ADP_EM: fast exhaustive multi-resolution docking for high-throughput coverage. Bioinformatics (Oxford, England). 23: 427-33. PMID 17150992 DOI: 10.1093/Bioinformatics/Btl625 |
0.336 |
|
| 2007 |
Buey RM, Monterroso B, Menéndez M, Diakun G, Chacón P, Hermoso JA, Díaz JF. Insights into molecular plasticity of choline binding proteins (pneumococcal surface proteins) by SAXS. Journal of Molecular Biology. 365: 411-24. PMID 17064729 DOI: 10.1016/J.Jmb.2006.09.091 |
0.371 |
|
| 2007 |
Garzón JI, Huedo E, Montero RS, Llorente IM, Chacón P. Adaptation of a Multi-Resolution Docking Bioinformatics Application to the Grid Journal of Software. 2: 1-10. DOI: 10.4304/Jsw.2.2.1-10 |
0.348 |
|
| 2004 |
Kovacs JA, Chacón P, Abagyan R. Predictions of protein flexibility: first-order measures. Proteins. 56: 661-8. PMID 15281119 DOI: 10.1002/Prot.20151 |
0.381 |
|
| 2004 |
Wriggers W, Chacón P, Kovacs JA, Tama F, Birmanns S. Topology representing neural networks reconcile biomolecular shape, structure, and dynamics Neurocomputing. 56: 365-379. DOI: 10.1016/J.Neucom.2003.09.007 |
0.487 |
|
| 2003 |
Kovacs JA, Chacón P, Cong Y, Metwally E, Wriggers W. Fast rotational matching of rigid bodies by fast Fourier transform acceleration of five degrees of freedom. Acta Crystallographica. Section D, Biological Crystallography. 59: 1371-6. PMID 12876338 DOI: 10.1107/S0907444903011247 |
0.338 |
|
| 2003 |
Chacón P, Tama F, Wriggers W. Mega-Dalton biomolecular motion captured from electron microscopy reconstructions. Journal of Molecular Biology. 326: 485-92. PMID 12559916 DOI: 10.1016/S0022-2836(02)01426-2 |
0.465 |
|
| 2002 |
Chacón P, Wriggers W. Multi-resolution contour-based fitting of macromolecular structures. Journal of Molecular Biology. 317: 375-84. PMID 11922671 DOI: 10.1006/Jmbi.2002.5438 |
0.336 |
|
| 2001 |
Unneberg P, Merelo JJ, Chacón P, Morán F. SOMCD: method for evaluating protein secondary structure from UV circular dichroism spectra. Proteins. 42: 460-470. PMID 11170201 DOI: 10.1002/1097-0134(20010301)42:4<460::Aid-Prot50>3.0.Co;2-U |
0.316 |
|
| 2001 |
Wriggers W, Chacón P. Using Situs for the registration of protein structures with low-resolution bead models from x-ray solution scattering Journal of Applied Crystallography. 34: 773-776. DOI: 10.1107/S0021889801012869 |
0.393 |
|
| 2000 |
Chacón P, Dı́az JF, Morán F, Andreu JM. Reconstruction of protein form with X-ray solution scattering and a genetic algorithm. Journal of Molecular Biology. 299: 1289-1302. PMID 10873453 DOI: 10.1006/Jmbi.2000.3784 |
0.338 |
|
| 1998 |
Díaz JF, Valpuesta JM, Chacón P, Diakun GP, Andreu JM. Changes in microtubule protofilament number induced by Taxol binding to an easily accessible site. Internal microtubule dynamics. Journal of Biological Chemistry. 273: 33803-33810. PMID 9837970 DOI: 10.1074/Jbc.273.50.33803 |
0.326 |
|
| 1998 |
Chacón P, Morán F, Díaz JF, Pantos E, Andreu JM. Low-resolution structures of proteins in solution retrieved from X-ray scattering with a genetic algorithm. Biophysical Journal. 74: 2760-2775. PMID 9635731 DOI: 10.1016/S0006-3495(98)77984-6 |
0.364 |
|
| 1997 |
Lambeir AM, Díaz Pereira JF, Chacón P, Vermeulen G, Heremans K, Devreese B, Van Beeumen J, De Meester I, Scharpé S. A prediction of DPP IV/CD26 domain structure from a physico-chemical investigation of dipeptidyl peptidase IV (CD26) from human seminal plasma. Biochimica Et Biophysica Acta. 1340: 215-26. PMID 9252108 DOI: 10.1016/S0167-4838(97)00045-9 |
0.335 |
|
| 1993 |
Andrade MA, Chacón P, Merelo JJ, Morán F. Evaluation of secondary structure of proteins from uv circular dichroism spectra using an unsupervised learning neural network Protein Engineering, Design and Selection. 6: 383-390. PMID 8332596 DOI: 10.1093/Protein/6.4.383 |
0.325 |
|
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