| Year |
Citation |
Score |
| 2024 |
Träger TK, Tüting C, Kastritis PL. The human touch: Utilizing AlphaFold 3 to analyze structures of endogenous metabolons. Structure (London, England : 1993). 32: 1555-1562. PMID 39303718 DOI: 10.1016/j.str.2024.08.018 |
0.786 |
|
| 2024 |
Winter A, Hamdi F, Eichhöfer A, Saalwächter K, Kastritis PL, Haase F. Enhancing structural control in covalent organic frameworks through steric interaction-driven linker design. Chemical Science. PMID 39165733 DOI: 10.1039/d4sc03461a |
0.695 |
|
| 2024 |
Träger TK, Kyrilis FL, Hamdi F, Tüting C, Alfes M, Hofmann T, Schmidt C, Kastritis PL. Disorder-to-order active site capping regulates the rate-limiting step of the inositol pathway. Proceedings of the National Academy of Sciences of the United States of America. 121: e2400912121. PMID 39145930 DOI: 10.1073/pnas.2400912121 |
0.797 |
|
| 2024 |
Kyrilis FL, Low JKK, Mackay JP, Kastritis PL. Structural biology in cellulo: Minding the gap between conceptualization and realization. Current Opinion in Structural Biology. 87: 102843. PMID 38788606 DOI: 10.1016/j.sbi.2024.102843 |
0.811 |
|
| 2024 |
Schmidt L, Tüting C, Kyrilis FL, Hamdi F, Semchonok DA, Hause G, Meister A, Ihling C, Stubbs MT, Sinz A, Kastritis PL. Delineating organizational principles of the endogenous L-A virus by cryo-EM and computational analysis of native cell extracts. Communications Biology. 7: 557. PMID 38730276 DOI: 10.1038/s42003-024-06204-7 |
0.766 |
|
| 2024 |
Otrin N, Otrin L, Bednarz C, Träger TK, Hamdi F, Kastritis PL, Ivanov I, Sundmacher K. Protein-Rich Rafts in Hybrid Polymer/Lipid Giant Unilamellar Vesicles. Biomacromolecules. PMID 38190609 DOI: 10.1021/acs.biomac.3c00972 |
0.738 |
|
| 2023 |
Schmitt FJ, Mehmood AS, Tüting C, Phan HT, Reisdorf J, Rieder F, Ghane Golmohamadi F, Verma R, Kastritis PL, Laufer J. Effect of Molecular Dynamics and Internal Water Contact on the Photophysical Properties of Red pH-Sensitive Proteins. Biochemistry. PMID 38085825 DOI: 10.1021/acs.biochem.3c00444 |
0.74 |
|
| 2023 |
Semchonok DA, Kyrilis FL, Hamdi F, Kastritis PL. Cryo-EM of a heterogeneous biochemical fraction elucidates multiple protein complexes from a multicellular thermophilic eukaryote. Journal of Structural Biology: X. 8: 100094. PMID 37638207 DOI: 10.1016/j.yjsbx.2023.100094 |
0.816 |
|
| 2023 |
Hassan AH, Ihling C, Iacobucci C, Kastritis PL, Sinz A, Kruse T. The structural principles underlying molybdenum insertase complex assembly. Protein Science : a Publication of the Protein Society. e4753. PMID 37572332 DOI: 10.1002/pro.4753 |
0.347 |
|
| 2023 |
Opatíková M, Semchonok DA, Kopečný D, Ilík P, Pospíšil P, Ilíková I, Roudnický P, Zeljković SĆ, Tarkowski P, Kyrilis FL, Hamdi F, Kastritis PL, Kouřil R. Cryo-EM structure of a plant photosystem II supercomplex with light-harvesting protein Lhcb8 and α-tocopherol. Nature Plants. PMID 37550369 DOI: 10.1038/s41477-023-01483-0 |
0.77 |
|
| 2023 |
Di Ianni A, Tüting C, Kipping M, Ihling CH, Köppen J, Iacobucci C, Arlt C, Kastritis PL, Sinz A. Structural assessment of the full-length wild-type tumor suppressor protein p53 by mass spectrometry-guided computational modeling. Scientific Reports. 13: 8497. PMID 37231156 DOI: 10.1038/s41598-023-35437-5 |
0.756 |
|
| 2023 |
Skalidis I, Kyrilis FL, Tüting C, Hamdi F, Träger TK, Belapure J, Hause G, Fratini M, O'Reilly FJ, Heilmann I, Rappsilber J, Kastritis PL. Structural analysis of an endogenous 4-megadalton succinyl-CoA-generating metabolon. Communications Biology. 6: 552. PMID 37217784 DOI: 10.1038/s42003-023-04885-0 |
0.8 |
|
| 2023 |
Zhou Y, Syed JH, Semchonok DA, Wright E, Kyrilis FL, Hamdi F, Kastritis PL, Bruce BD, Reynolds TB. Solubilization, purification, and characterization of the hexameric form of phosphatidylserine synthase from Candida albicans. The Journal of Biological Chemistry. 104756. PMID 37116705 DOI: 10.1016/j.jbc.2023.104756 |
0.797 |
|
| 2023 |
Tüting C, Schmidt L, Skalidis I, Sinz A, Kastritis PL. Enabling cryo-EM density interpretation from yeast native cell extracts by proteomics data and AlphaFold structures. Proteomics. e2200096. PMID 37016452 DOI: 10.1002/pmic.202200096 |
0.823 |
|
| 2023 |
Zahn T, Zhu Z, Ritoff N, Krapf J, Junker A, Altmann T, Schmutzer T, Tüting C, Kastritis PL, Babben S, Quint M, Pillen K, Maurer A. Novel exotic alleles of EARLY FLOWERING 3 determine plant development in barley. Journal of Experimental Botany. PMID 37010230 DOI: 10.1093/jxb/erad127 |
0.737 |
|
| 2023 |
Träger T, Kastritis PL. Cracking the code of cellular protein-protein interactions: Alphafold and whole-cell crosslinking to the rescue. Molecular Systems Biology. e11587. PMID 36896624 DOI: 10.15252/msb.202311587 |
0.385 |
|
| 2022 |
Demisli S, Galani E, Goulielmaki M, Kyrilis FL, Ilić T, Hamdi F, Crevar M, Kastritis PL, Pletsa V, Nallet F, Savić S, Xenakis A, Papadimitriou V. Encapsulation of cannabidiol in oil-in-water nanoemulsions and nanoemulsion-filled hydrogels: A structure and biological assessment study. Journal of Colloid and Interface Science. 634: 300-313. PMID 36535166 DOI: 10.1016/j.jcis.2022.12.036 |
0.682 |
|
| 2022 |
Belapure J, Sorokina M, Kastritis PL. IRAA: A statistical tool for investigating a protein-protein interaction interface from multiple structures. Protein Science : a Publication of the Protein Society. e4523. PMID 36454539 DOI: 10.1002/pro.4523 |
0.833 |
|
| 2022 |
Janson K, Kyrilis FL, Tüting C, Alfes M, Das M, Träger TK, Schmidt C, Hamdi F, Vargas C, Keller S, Meister A, Kastritis PL. Cryo-Electron Microscopy Snapshots of Eukaryotic Membrane Proteins in Native Lipid-Bilayer Nanodiscs. Biomacromolecules. PMID 36399657 DOI: 10.1021/acs.biomac.2c00935 |
0.798 |
|
| 2022 |
Tafur L, Hinterndorfer K, Gabus C, Lamanna C, Bergmann A, Sadian Y, Hamdi F, Kyrilis FL, Kastritis PL, Loewith R. Cryo-EM structure of the SEA complex. Nature. 611: 399-404. PMID 36289347 DOI: 10.1038/s41586-022-05370-0 |
0.811 |
|
| 2022 |
Wurl A, Ott M, Plato E, Meister A, Hamdi F, Kastritis PL, Blume A, Ferreira TM. Filling the Gap with Long -Alkanes: Incorporation of C20 and C30 into Phospholipid Membranes. Langmuir : the Acs Journal of Surfaces and Colloids. PMID 35786894 DOI: 10.1021/acs.langmuir.2c00872 |
0.756 |
|
| 2022 |
Sorokina M, Belapure J, Tüting C, Paschke R, Papasotiriou I, Rodrigues JPGLM, Kastritis PL. An Electrostatically-steered Conformational Selection Mechanism Promotes SARS-CoV-2 Spike Protein Variation. Journal of Molecular Biology. 434: 167637. PMID 35595165 DOI: 10.1016/j.jmb.2022.167637 |
0.796 |
|
| 2022 |
Marušič N, Otrin L, Rauchhaus J, Zhao Z, Kyrilis FL, Hamdi F, Kastritis PL, Dimova R, Ivanov I, Sundmacher K. Increased efficiency of charge-mediated fusion in polymer/lipid hybrid membranes. Proceedings of the National Academy of Sciences of the United States of America. 119: e2122468119. PMID 35549547 DOI: 10.1073/pnas.2122468119 |
0.779 |
|
| 2022 |
Li F, Harvey RD, Modicano P, Hamdi F, Kyrilis F, Müller S, Gruhle K, Kastritis P, Drescher S, Dailey LA. Investigating bolalipids as solubilizing agents for poorly soluble drugs: Effects of alkyl chain length on solubilization and cytotoxicity. Colloids and Surfaces. B, Biointerfaces. 212: 112369. PMID 35123195 DOI: 10.1016/j.colsurfb.2022.112369 |
0.679 |
|
| 2022 |
Skalidis I, Kyrilis FL, Tüting C, Hamdi F, Chojnowski G, Kastritis PL. Cryo-EM and artificial intelligence visualize endogenous protein community members. Structure (London, England : 1993). PMID 35093201 DOI: 10.1016/j.str.2022.01.001 |
0.807 |
|
| 2021 |
Semchonok DA, Mondal J, Cooper CJ, Schlum K, Li M, Amin M, Sorzano COS, Ramírez-Aportela E, Kastritis PL, Boekema EJ, Guskov A, Bruce BD. Cryo-EM structure of a tetrameric photosystem I from TS-821, a thermophilic, unicellular, non-heterocyst-forming cyanobacterium. Plant Communications. 3: 100248. PMID 35059628 DOI: 10.1016/j.xplc.2021.100248 |
0.798 |
|
| 2021 |
Tüting C, Kyrilis FL, Müller J, Sorokina M, Skalidis I, Hamdi F, Sadian Y, Kastritis PL. Cryo-EM snapshots of a native lysate provide structural insights into a metabolon-embedded transacetylase reaction. Nature Communications. 12: 6933. PMID 34836937 DOI: 10.1038/s41467-021-27287-4 |
0.793 |
|
| 2021 |
Piersimoni L, Kastritis PL, Arlt C, Sinz A. Cross-Linking Mass Spectrometry for Investigating Protein Conformations and Protein-Protein Interactions─A Method for All Seasons. Chemical Reviews. PMID 34797068 DOI: 10.1021/acs.chemrev.1c00786 |
0.376 |
|
| 2021 |
Otrin L, Witkowska A, Marušič N, Zhao Z, Lira RB, Kyrilis FL, Hamdi F, Ivanov I, Lipowsky R, Kastritis PL, Dimova R, Sundmacher K, Jahn R, Vidaković-Koch T. En route to dynamic life processes by SNARE-mediated fusion of polymer and hybrid membranes. Nature Communications. 12: 4972. PMID 34404795 DOI: 10.1038/s41467-021-25294-z |
0.785 |
|
| 2021 |
Janson K, Zierath J, Kyrilis FL, Semchonok DA, Hamdi F, Skalidis I, Kopf AH, Das M, Kolar C, Rasche M, Vargas C, Keller S, Kastritis PL, Meister A. Solubilization of artificial mitochondrial membranes by amphiphilic copolymers of different charge. Biochimica Et Biophysica Acta. Biomembranes. 183725. PMID 34384757 DOI: 10.1016/j.bbamem.2021.183725 |
0.769 |
|
| 2021 |
Hoffmann M, Haselberger D, Hofmann T, Müller L, Janson K, Meister A, Das M, Vargas C, Keller S, Kastritis PL, Schmidt C, Hinderberger D. Nanoscale Model System for the Human Myelin Sheath. Biomacromolecules. PMID 34324309 DOI: 10.1021/acs.biomac.1c00714 |
0.783 |
|
| 2021 |
Li Y, Kuhn M, Zukowska-Kasprzyk J, Hennrich ML, Kastritis PL, O'Reilly FJ, Phapale P, Beck M, Gavin AC, Bork P. Coupling proteomics and metabolomics for the unsupervised identification of protein-metabolite interactions in Chaetomium thermophilum. Plos One. 16: e0254429. PMID 34242379 DOI: 10.1371/journal.pone.0254429 |
0.741 |
|
| 2021 |
Drikos I, Boutou E, Kastritis PL, Vorgias CE. Mutations Alter the Subcellular Localization of BRCA1 . Anticancer Research. 41: 2953-2962. PMID 34083286 DOI: 10.21873/anticanres.15077 |
0.251 |
|
| 2021 |
Kyrilis FL, Belapure J, Kastritis PL. Detecting Protein Communities in Native Cell Extracts by Machine Learning: A Structural Biologist's Perspective. Frontiers in Molecular Biosciences. 8: 660542. PMID 33937337 DOI: 10.3389/fmolb.2021.660542 |
0.818 |
|
| 2021 |
Rehkamp A, Tänzler D, Tüting C, Kastritis PL, Iacobucci C, Ihling CH, Kipping M, Koch KW, Sinz A. First 3D-Structural Data of Full-length Guanylyl Cyclase 1 in Rod-Outer-Segment Preparations of Bovine Retina by Cross-linking/Mass Spectrometry. Journal of Molecular Biology. 166947. PMID 33744315 DOI: 10.1016/j.jmb.2021.166947 |
0.76 |
|
| 2021 |
Niemeyer M, Castillo EM, Ihling CH, Iacobucci C, Wilde V, Hellmuth A, Hoehenwarter W, Samodelov SL, Zurbriggen MD, Kastritis PL, Sinz A, Villalobos LIAC. Author Correction: Flexibility of intrinsically disordered degrons in AUX/IAA proteins reinforces auxin co-receptor assemblies. Nature Communications. 12: 1768. PMID 33723268 DOI: 10.1038/s41467-021-22151-x |
0.286 |
|
| 2021 |
Kyrilis FL, Semchonok DA, Skalidis I, Tüting C, Hamdi F, O'Reilly FJ, Rappsilber J, Kastritis PL. Integrative structure of a 10-megadalton eukaryotic pyruvate dehydrogenase complex from native cell extracts. Cell Reports. 34: 108727. PMID 33567276 DOI: 10.1016/j.celrep.2021.108727 |
0.804 |
|
| 2021 |
Sorzano COS, Semchonok D, Lin SC, Lo YC, Vilas JL, Jiménez-Moreno A, Gragera M, Vacca S, Maluenda D, Martínez M, Ramírez-Aportela E, Melero R, Cuervo A, Conesa JJ, Conesa P, ... ... Kastritis PL, et al. Algorithmic robustness to preferred orientations in Single Particle Analysis by CryoEM. Journal of Structural Biology. 107695. PMID 33421545 DOI: 10.1016/j.jsb.2020.107695 |
0.726 |
|
| 2020 |
Rodrigues JPGLM, Barrera-Vilarmau S, M C Teixeira J, Sorokina M, Seckel E, Kastritis PL, Levitt M. Insights on cross-species transmission of SARS-CoV-2 from structural modeling. Plos Computational Biology. 16: e1008449. PMID 33270653 DOI: 10.1371/journal.pcbi.1008449 |
0.797 |
|
| 2020 |
Sorokina M, M C Teixeira J, Barrera-Vilarmau S, Paschke R, Papasotiriou I, Rodrigues JPGLM, Kastritis PL. Structural models of human ACE2 variants with SARS-CoV-2 Spike protein for structure-based drug design. Scientific Data. 7: 309. PMID 32938937 DOI: 10.1038/S41597-020-00652-6 |
0.8 |
|
| 2020 |
Zhou Y, Kastritis PL, Dougherty SE, Bouvette J, Hsu AL, Burbaum L, Mosalaganti S, Pfeffer S, Hagen WJH, Förster F, Borgnia MJ, Vogel C, Beck M, Bartesaghi A, Silva GM. Structural impact of K63 ubiquitin on yeast translocating ribosomes under oxidative stress. Proceedings of the National Academy of Sciences of the United States of America. PMID 32855298 DOI: 10.1073/Pnas.2005301117 |
0.606 |
|
| 2020 |
Skalidis I, Tüting C, Kastritis PL. Unstructured regions of large enzymatic complexes control the availability of metabolites with signaling functions. Cell Communication and Signaling : Ccs. 18: 136. PMID 32843078 DOI: 10.1186/S12964-020-00631-9 |
0.798 |
|
| 2020 |
Tüting C, Iacobucci C, Ihling CH, Kastritis PL, Sinz A. Structural analysis of 70S ribosomes by cross-linking/mass spectrometry reveals conformational plasticity. Scientific Reports. 10: 12618. PMID 32724211 DOI: 10.1038/S41598-020-69313-3 |
0.784 |
|
| 2020 |
Modicano P, Neumann R, Schüller M, Holthof J, Kyrilis FL, Hamdi F, Kastritis PL, Mäder K, Ann Dailey L. Enhanced optical imaging properties of lipid nanocapsules as vehicles for fluorescent conjugated polymers. European Journal of Pharmaceutics and Biopharmaceutics : Official Journal of Arbeitsgemeinschaft Fur Pharmazeutische Verfahrenstechnik E.V. PMID 32707286 DOI: 10.1016/J.Ejpb.2020.07.017 |
0.76 |
|
| 2020 |
Rodrigues JP, Barrera-Vilarmau S, Teixeira JM, Seckel E, Kastritis P, Levitt M. Insights on cross-species transmission of SARS-CoV-2 from structural modeling. Biorxiv : the Preprint Server For Biology. PMID 32577636 DOI: 10.1101/2020.06.05.136861 |
0.682 |
|
| 2020 |
Marušič N, Otrin L, Zhao Z, Lira RB, Kyrilis FL, Hamdi F, Kastritis PL, Vidaković-Koch T, Ivanov I, Sundmacher K, Dimova R. Constructing artificial respiratory chain in polymer compartments: Insights into the interplay between oxidase and the membrane. Proceedings of the National Academy of Sciences of the United States of America. PMID 32554497 DOI: 10.1073/Pnas.1919306117 |
0.794 |
|
| 2020 |
Niemeyer M, Moreno Castillo E, Ihling CH, Iacobucci C, Wilde V, Hellmuth A, Hoehenwarter W, Samodelov SL, Zurbriggen MD, Kastritis PL, Sinz A, Calderón Villalobos LIA. Flexibility of intrinsically disordered degrons in AUX/IAA proteins reinforces auxin co-receptor assemblies. Nature Communications. 11: 2277. PMID 32385295 DOI: 10.1038/S41467-020-16147-2 |
0.463 |
|
| 2020 |
Hamdi F, Tüting C, Semchonok DA, Visscher KM, Kyrilis FL, Meister A, Skalidis I, Schmidt L, Parthier C, Stubbs MT, Kastritis PL. 2.7 Å cryo-EM structure of vitrified M. musculus H-chain apoferritin from a compact 200 keV cryo-microscope. Plos One. 15: e0232540. PMID 32374767 DOI: 10.1371/Journal.Pone.0232540 |
0.766 |
|
| 2019 |
Kyrilis FL, Meister A, Kastritis PL. Integrative biology of native cell extracts: a new era for structural characterization of life processes. Biological Chemistry. PMID 31091193 DOI: 10.1515/Hsz-2018-0445 |
0.804 |
|
| 2019 |
Hampoelz B, Andres-Pons A, Kastritis P, Beck M. Structure and Assembly of the Nuclear Pore Complex. Annual Review of Biophysics. PMID 30943044 DOI: 10.1146/Annurev-Biophys-052118-115308 |
0.649 |
|
| 2018 |
Kastritis PL, Gavin AC. Enzymatic complexes across scales. Essays in Biochemistry. 62: 501-514. PMID 30315098 DOI: 10.1042/Ebc20180008 |
0.679 |
|
| 2018 |
Bonvin AMJJ, Karaca E, Kastritis PL, Rodrigues JPGLM. Defining distance restraints in HADDOCK. Nature Protocols. PMID 29942005 DOI: 10.1038/S41596-018-0017-6 |
0.656 |
|
| 2017 |
Kastritis PL, O'Reilly FJ, Bock T, Li Y, Rogon MZ, Buczak K, Romanov N, Betts MJ, Bui KH, Hagen WJ, Hennrich ML, Mackmull MT, Rappsilber J, Russell RB, Bork P, et al. Capturing protein communities by structural proteomics in a thermophilic eukaryote. Molecular Systems Biology. 13: 936. PMID 28743795 DOI: 10.15252/Msb.20167412 |
0.832 |
|
| 2017 |
Vangone A, Rodrigues JPGLM, Xue LC, van Zundert GCP, Geng C, Kurkcuoglu Z, Nellen M, Narasimhan S, Karaca E, van Dijk M, Melquiond ASJ, Visscher KM, Trellet M, Kastritis PL, Bonvin AMJJ. Sense and Simplicity in HADDOCK Scoring: Lessons from CASP-CAPRI (page 418). Proteins. 85: 1589-1590. PMID 28730688 DOI: 10.1002/Prot.25339 |
0.76 |
|
| 2017 |
Ichikawa M, Liu D, Kastritis PL, Basu K, Hsu TC, Yang S, Bui KH. Subnanometre-resolution structure of the doublet microtubule reveals new classes of microtubule-associated proteins. Nature Communications. 8: 15035. PMID 28462916 DOI: 10.1038/Ncomms15035 |
0.757 |
|
| 2016 |
Vangone A, Rodrigues JP, Xue LC, van Zundert GC, Geng C, Kurkcuoglu Z, Nellen M, Narasimhan S, Karaca E, van Dijk M, Melquiond AS, Visscher KM, Trellet M, Kastritis PL, Bonvin AM. Sense and Simplicity in HADDOCK Scoring: Lessons from CASP-CAPRI Round1. Proteins. PMID 27802573 DOI: 10.1002/Prot.25198 |
0.773 |
|
| 2016 |
Spiliotopoulos D, Kastritis PL, Melquiond AS, Bonvin AM, Musco G, Rocchia W, Spitaleri A. dMM-PBSA: A New HADDOCK Scoring Function for Protein-Peptide Docking. Frontiers in Molecular Biosciences. 3: 46. PMID 27630991 DOI: 10.3389/Fmolb.2016.00046 |
0.805 |
|
| 2016 |
Xue LC, Rodrigues JP, Kastritis PL, Bonvin AM, Vangone A. PRODIGY: a web server for predicting the binding affinity of protein-protein complexes. Bioinformatics (Oxford, England). PMID 27503228 DOI: 10.1093/Bioinformatics/Btw514 |
0.824 |
|
| 2016 |
Lensink MF, Velankar S, Kryshtafovych A, Huang SY, Schneidman-Duhovny D, Sali A, Segura J, Fernandez-Fuentes N, Viswanath S, Elber R, Grudinin S, Popov P, Neveu E, Lee H, Baek M, ... ... Kastritis PL, et al. Prediction of homo- and hetero-protein complexes by protein docking and template-based modeling: a CASP-CAPRI experiment. Proteins. PMID 27122118 DOI: 10.1002/Prot.25007 |
0.807 |
|
| 2016 |
Krüger M, Kalbacher H, Kastritis PL, Bischof J, Barth H, Henne-Bruns D, Vorgias C, Sarno S, Pinna LA, Knippschild U. New potential peptide therapeutics perturbing CK1δ/α-tubulin interaction. Cancer Letters. PMID 26996302 DOI: 10.1016/J.Canlet.2016.03.021 |
0.415 |
|
| 2016 |
Ori A, Iskar M, Buczak K, Kastritis P, Parca L, Andrés-Pons A, Singer S, Bork P, Beck M. Spatiotemporal variation of mammalian protein complex stoichiometries. Genome Biology. 17: 47. PMID 26975353 DOI: 10.1186/S13059-016-0912-5 |
0.659 |
|
| 2016 |
Silva-Martin N, Daudén MI, Glatt S, Hoffmann NA, Kastritis P, Bork P, Beck M, Müller CW. The Combination of X-Ray Crystallography and Cryo-Electron Microscopy Provides Insight into the Overall Architecture of the Dodecameric Rvb1/Rvb2 Complex. Plos One. 11: e0146457. PMID 26745716 DOI: 10.1371/Journal.Pone.0146457 |
0.621 |
|
| 2015 |
von Appen A, Kosinski J, Sparks L, Ori A, DiGuilio AL, Vollmer B, Mackmull MT, Banterle N, Parca L, Kastritis P, Buczak K, Mosalaganti S, Hagen W, Andres-Pons A, Lemke EA, et al. In situ structural analysis of the human nuclear pore complex. Nature. 526: 140-3. PMID 26416747 DOI: 10.1038/Nature15381 |
0.811 |
|
| 2015 |
van Zundert GC, Rodrigues JP, Trellet M, Schmitz C, Kastritis PL, Karaca E, Melquiond AS, van Dijk M, de Vries SJ, Bonvin AM. The HADDOCK2.2 web server: User-friendly integrative modeling of biomolecular complexes. Journal of Molecular Biology. PMID 26410586 DOI: 10.1016/J.Jmb.2015.09.014 |
0.783 |
|
| 2015 |
Vreven T, Moal IH, Vangone A, Pierce BG, Kastritis PL, Torchala M, Chaleil R, Jiménez-García B, Bates PA, Fernandez-Recio J, Bonvin AM, Weng Z. Updates to the Integrated Protein-Protein Interaction Benchmarks: Docking Benchmark Version 5 and Affinity Benchmark Version 2. Journal of Molecular Biology. 427: 3031-41. PMID 26231283 DOI: 10.1016/J.Jmb.2015.07.016 |
0.815 |
|
| 2015 |
Gaik M, Flemming D, von Appen A, Kastritis P, Mücke N, Fischer J, Stelter P, Ori A, Bui KH, Baßler J, Barbar E, Beck M, Hurt E. Structural basis for assembly and function of the Nup82 complex in the nuclear pore scaffold. The Journal of Cell Biology. 208: 283-97. PMID 25646085 DOI: 10.1083/Jcb.201411003 |
0.801 |
|
| 2015 |
Visscher KM, Kastritis PL, Bonvin AM. Non-interacting surface solvation and dynamics in protein-protein interactions. Proteins. 83: 445-58. PMID 25524313 DOI: 10.1002/Prot.24741 |
0.748 |
|
| 2014 |
Bock T, Chen WH, Ori A, Malik N, Silva-Martin N, Huerta-Cepas J, Powell ST, Kastritis PL, Smyshlyaev G, Vonkova I, Kirkpatrick J, Doerks T, Nesme L, Baßler J, Kos M, et al. An integrated approach for genome annotation of the eukaryotic thermophile Chaetomium thermophilum. Nucleic Acids Research. 42: 13525-33. PMID 25398899 DOI: 10.1093/Nar/Gku1147 |
0.748 |
|
| 2014 |
Kastritis PL, Rodrigues JP, Folkers GE, Boelens R, Bonvin AM. Proteins feel more than they see: fine-tuning of binding affinity by properties of the non-interacting surface. Journal of Molecular Biology. 426: 2632-52. PMID 24768922 DOI: 10.1016/J.Jmb.2014.04.017 |
0.81 |
|
| 2014 |
Kastritis PL, Rodrigues JP, Bonvin AM. HADDOCK(2P2I): a biophysical model for predicting the binding affinity of protein-protein interaction inhibitors. Journal of Chemical Information and Modeling. 54: 826-36. PMID 24521147 DOI: 10.1021/Ci4005332 |
0.804 |
|
| 2014 |
Lensink MF, Moal IH, Bates PA, Kastritis PL, Melquiond AS, Karaca E, Schmitz C, van Dijk M, Bonvin AM, Eisenstein M, Jiménez-García B, Grosdidier S, Solernou A, Pérez-Cano L, Pallara C, et al. Blind prediction of interfacial water positions in CAPRI. Proteins. 82: 620-32. PMID 24155158 DOI: 10.1002/Prot.24439 |
0.792 |
|
| 2013 |
Rodrigues JP, Melquiond AS, Karaca E, Trellet M, van Dijk M, van Zundert GC, Schmitz C, de Vries SJ, Bordogna A, Bonati L, Kastritis PL, Bonvin AM. Defining the limits of homology modeling in information-driven protein docking. Proteins. 81: 2119-28. PMID 23913867 DOI: 10.1002/Prot.24382 |
0.801 |
|
| 2013 |
Kastritis PL, Bonvin AM. Molecular origins of binding affinity: seeking the Archimedean point. Current Opinion in Structural Biology. 23: 868-77. PMID 23876790 DOI: 10.1016/J.Sbi.2013.07.001 |
0.71 |
|
| 2013 |
Moretti R, Fleishman SJ, Agius R, Torchala M, Bates PA, Kastritis PL, Rodrigues JP, Trellet M, Bonvin AM, Cui M, Rooman M, Gillis D, Dehouck Y, Moal I, Romero-Durana M, et al. Community-wide evaluation of methods for predicting the effect of mutations on protein-protein interactions. Proteins. 81: 1980-7. PMID 23843247 DOI: 10.1002/Prot.24356 |
0.797 |
|
| 2013 |
van Dijk M, Visscher KM, Kastritis PL, Bonvin AM. Solvated protein-DNA docking using HADDOCK. Journal of Biomolecular Nmr. 56: 51-63. PMID 23625455 DOI: 10.1007/S10858-013-9734-X |
0.732 |
|
| 2013 |
Kastritis PL, Bonvin AM. On the binding affinity of macromolecular interactions: daring to ask why proteins interact. Journal of the Royal Society, Interface / the Royal Society. 10: 20120835. PMID 23235262 DOI: 10.1098/Rsif.2012.0835 |
0.748 |
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| 2013 |
Kastritis PL, Visscher KM, van Dijk AD, Bonvin AM. Solvated protein-protein docking using Kyte-Doolittle-based water preferences. Proteins. 81: 510-8. PMID 23161727 DOI: 10.1002/Prot.24210 |
0.7 |
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| 2012 |
Rodrigues JP, Trellet M, Schmitz C, Kastritis P, Karaca E, Melquiond AS, Bonvin AM. Clustering biomolecular complexes by residue contacts similarity. Proteins. 80: 1810-7. PMID 22489062 DOI: 10.1002/Prot.24078 |
0.782 |
|
| 2012 |
Kastritis PL, van Dijk AD, Bonvin AM. Explicit treatment of water molecules in data-driven protein-protein docking: the solvated HADDOCKing approach. Methods in Molecular Biology (Clifton, N.J.). 819: 355-74. PMID 22183547 DOI: 10.1007/978-1-61779-465-0_22 |
0.74 |
|
| 2012 |
Melquiond ASJ, Karaca E, Kastritis PL, Bonvin AMJJ. Next challenges in protein-protein docking: From proteome to interactome and beyond Wiley Interdisciplinary Reviews: Computational Molecular Science. 2: 642-651. DOI: 10.1002/Wcms.91 |
0.772 |
|
| 2012 |
Schmitz C, Melquiond ASJ, de Vries SJ, Karaca E, van Dijk M, Kastritis PL, Bonvin AMJJ. Protein-Protein Docking with HADDOCK Nmr of Biomolecules: Towards Mechanistic Systems Biology. 520-535. DOI: 10.1002/9783527644506.ch32 |
0.788 |
|
| 2012 |
Kastritis PL, Bonvin AMJJ. Predicting and dissecting high-order molecular complexity by information-driven biomolecular docking Antimicrobial Drug Discovery: Emerging Strategies. 232-246. |
0.338 |
|
| 2011 |
Fleishman SJ, Whitehead TA, Strauch EM, Corn JE, Qin S, Zhou HX, Mitchell JC, Demerdash ON, Takeda-Shitaka M, Terashi G, Moal IH, Li X, Bates PA, Zacharias M, Park H, ... ... Kastritis PL, et al. Community-wide assessment of protein-interface modeling suggests improvements to design methodology. Journal of Molecular Biology. 414: 289-302. PMID 22001016 DOI: 10.1016/J.Jmb.2011.09.031 |
0.814 |
|
| 2011 |
Fiamegos YC, Kastritis PL, Exarchou V, Han H, Bonvin AM, Vervoort J, Lewis K, Hamblin MR, Tegos GP. Antimicrobial and efflux pump inhibitory activity of caffeoylquinic acids from Artemisia absinthium against gram-positive pathogenic bacteria. Plos One. 6: e18127. PMID 21483731 DOI: 10.1371/Journal.Pone.0018127 |
0.688 |
|
| 2011 |
Kastritis PL, Moal IH, Hwang H, Weng Z, Bates PA, Bonvin AM, Janin J. A structure-based benchmark for protein-protein binding affinity. Protein Science : a Publication of the Protein Society. 20: 482-91. PMID 21213247 DOI: 10.1002/Pro.580 |
0.767 |
|
| 2011 |
Kastritis PL, Bonvin AMJJ. Erratum: Are scoring functions in protein - Protein Docking Ready to predict interactomes? Clues from a novel binding affinity benchmark (Journal of Proteome Research (2010) 9 (2216-2225) Journal of Proteome Research. 10: 921-922. DOI: 10.1021/Pr101118T |
0.369 |
|
| 2010 |
de Vries SJ, Melquiond AS, Kastritis PL, Karaca E, Bordogna A, van Dijk M, Rodrigues JP, Bonvin AM. Strengths and weaknesses of data-driven docking in critical assessment of prediction of interactions. Proteins. 78: 3242-9. PMID 20718048 DOI: 10.1002/Prot.22814 |
0.8 |
|
| 2010 |
Kastritis PL, Bonvin AM. Are scoring functions in protein-protein docking ready to predict interactomes? Clues from a novel binding affinity benchmark. Journal of Proteome Research. 9: 2216-25. PMID 20329755 DOI: 10.1021/Pr9009854 |
0.733 |
|
| 2010 |
Karaca E, Melquiond AS, de Vries SJ, Kastritis PL, Bonvin AM. Building macromolecular assemblies by information-driven docking: introducing the HADDOCK multibody docking server. Molecular & Cellular Proteomics : McP. 9: 1784-94. PMID 20305088 DOI: 10.1074/Mcp.M000051-Mcp201 |
0.822 |
|
| 2007 |
Kastritis PL, Papandreou NC, Hamodrakas SJ. Haloadaptation: insights from comparative modeling studies of halophilic archaeal DHFRs. International Journal of Biological Macromolecules. 41: 447-53. PMID 17675150 DOI: 10.1016/J.Ijbiomac.2007.06.005 |
0.458 |
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