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A Comprehensive Mapping of the Druggable Cavities within the SARS-CoV-2 Therapeutically Relevant Proteins by Combining Pocket and Docking Searches as Implemented in Pockets 2.0.
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- International Journal of Molecular Sciences, 2020, v. 21, n. 14, p. 5152, doi. 10.3390/ijms21145152
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Automated comparative protein structure modeling with SWISS-MODEL and Swiss-PdbViewer: A historical perspective.
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- Electrophoresis, 2009, v. 30, p. S162, doi. 10.1002/elps.200900140
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The SWISS-MODEL Repository--new features and functionality.
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- Nucleic Acids Research, 2017, v. 45, n. D1, p. D313, doi. 10.1093/nar/gkw1132
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SWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary information.
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- Nucleic Acids Research, 2014, v. 42, n. W1, p. W252, doi. 10.1093/nar/gku340
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Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support.
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- Nucleic Acids Research, 2014, v. 42, n. W1, p. W436, doi. 10.1093/nar/gku380
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- Article
QMEAN server for protein model quality estimation.
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- Nucleic Acids Research, 2009, v. 37, n. suppl_2, p. W510, doi. 10.1093/nar/gkp322
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- Article
The protein structure initiative structural genomics knowledgebase.
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- Nucleic Acids Research, 2009, v. 37, n. suppl_1, p. D365, doi. 10.1093/nar/gkn790
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The SWISS-MODEL Repository and associated resources.
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- Nucleic Acids Research, 2009, v. 37, n. suppl_1, p. D387, doi. 10.1093/nar/gkn750
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A computational protocol to evaluate the effects of protein mutants in the kinase gatekeeper position on the binding of ATP substrate analogues.
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- BMC Research Notes, 2017, v. 10, p. 1, doi. 10.1186/s13104-017-2428-9
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Embedding-based alignment: combining protein language models with dynamic programming alignment to detect structural similarities in the twilight-zone.
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- Bioinformatics, 2024, v. 40, n. 1, p. 1, doi. 10.1093/bioinformatics/btad786
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Critical assessment of methods of protein structure prediction: Progress and new directions in round XI.
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- Proteins, 2016, v. 84, p. 4, doi. 10.1002/prot.25064
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Methods of model accuracy estimation can help selecting the best models from decoy sets: Assessment of model accuracy estimations in CASP11.
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- Proteins, 2016, v. 84, p. 349, doi. 10.1002/prot.24919
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Cover Image, Volume 84, Issue S1.
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- Proteins, 2016, v. 84, p. C1, doi. 10.1002/prot.25150
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Cover Image, Volume 84, Issue S1.
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- Proteins, 2016, v. 84, p. C4, doi. 10.1002/prot.25151
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Critical assessment of methods of protein structure prediction (CASP) - round x.
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- Proteins, 2014, v. 82, p. 1, doi. 10.1002/prot.24452
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Assessment of ligand binding site predictions in CASP10.
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- Proteins, 2014, v. 82, p. 154, doi. 10.1002/prot.24495
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Assessment of the assessment: Evaluation of the model quality estimates in CASP10.
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- Proteins, 2014, v. 82, p. 112, doi. 10.1002/prot.24347
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Assessment of template based protein structure predictions in CASP9.
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- Proteins, 2011, v. 79, p. 37, doi. 10.1002/prot.23177
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CASP9 target classification.
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- Proteins, 2011, v. 79, p. 21, doi. 10.1002/prot.23190
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Assessment of ligand-binding residue predictions in CASP9.
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- Proteins, 2011, v. 79, p. 126, doi. 10.1002/prot.23174
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Global and local model quality estimation at CASP8 using the scoring functions QMEAN and QMEANclust.
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- Proteins, 2009, v. 77, n. S9, p. 173, doi. 10.1002/prot.22532
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Assessment of CASP7 predictions for template-based modeling targets.
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- Proteins, 2007, v. 69, n. S8, p. 38, doi. 10.1002/prot.21753
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Assessment of disorder predictions in CASP7.
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- Proteins, 2007, v. 69, n. S8, p. 129, doi. 10.1002/prot.21671
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Domain definition and target classification for CASP7.
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- Proteins, 2007, v. 69, n. S8, p. 10, doi. 10.1002/prot.21686
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Automated server predictions in CASP7.
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- Proteins, 2007, v. 69, n. S8, p. 68, doi. 10.1002/prot.21761
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How inaccuracies in protein structure models affect estimates of protein-ligand interactions: Computational analysis of HIV-I protease inhibitor binding.
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- Proteins, 2006, v. 65, n. 2, p. 407, doi. 10.1002/prot.21096
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Structural Bioinformatics. By Philip E. Bourne and Helge Weissig (Eds.).
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- Proteomics, 2006, v. 6, n. 8, p. 2626, doi. 10.1002/pmic.200690044
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Mutations in the TMPRSS3 gene are a rare cause of childhood nonsyndromic deafness in Caucasian patients.
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- Journal of Molecular Medicine, 2002, v. 80, n. 2, p. 124, doi. 10.1007/s00109-001-0310-6
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The Protein Model Portal--a comprehensive resource for protein structure and model information.
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- Database: The Journal of Biological Databases & Curation, 2013, v. 2013, p. 1, doi. 10.1093/database/bat031
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The SWISS-MODEL Repository: new features and functionalities.
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- Nucleic Acids Research, 2006, v. 34, n. suppl 1, p. d315, doi. 10.1093/nar/gkj056
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The SWISS‐MODEL Repository of annotated three‐dimensional protein structure homology models.
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- Nucleic Acids Research, 2004, v. 32, n. suppl 1, p. d230
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SWISS-MODEL: an automated protein homology-modeling server.
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- Nucleic Acids Research, 2003, v. 31, n. 13, p. 3381, doi. 10.1093/nar/gkg520
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Discriminating physiological from non‐physiological interfaces in structures of protein complexes: A community‐wide study.
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- Proteomics, 2023, v. 23, n. 17, p. 1, doi. 10.1002/pmic.202200323
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Zinc-selective inhibition of the promiscuous bacterial amide-hydrolase DapE: implications of metal heterogeneity for evolution and antibiotic drug design.
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- Metallomics, 2014, v. 6, n. 1, p. 88, doi. 10.1039/c3mt00125c
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ProMod3—A versatile homology modelling toolbox.
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- PLoS Computational Biology, 2021, v. 17, n. 1, p. 1, doi. 10.1371/journal.pcbi.1008667
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2017 publication guidelines for structural modelling of small-angle scattering data from biomolecules in solution: an update.
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- Acta Crystallographica: Section D, Structural Biology, 2017, v. 73, n. 9, p. 710, doi. 10.1107/S2059798317011597
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Novel cargo-binding site in the β and δ subunits of coatomer.
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- Journal of Cell Biology, 2007, v. 179, n. 2, p. 209, doi. 10.1083/jcb.200704142
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The SWISS-MODEL workspace: a web-based environment for protein structure homology modelling.
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- Bioinformatics, 2006, v. 22, n. 2, p. 195, doi. 10.1093/bioinformatics/bti770
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The structure assessment web server: for proteins, complexes and more.
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- Nucleic Acids Research, 2024, v. 52, n. W1, p. W318, doi. 10.1093/nar/gkae270
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Outer membrane β‐barrel structure prediction through the lens of AlphaFold2.
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- Proteins, 2024, v. 92, n. 1, p. 3, doi. 10.1002/prot.26552
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Assessment of the assessment—All about complexes.
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- Proteins, 2023, v. 91, n. 12, p. 1850, doi. 10.1002/prot.26612
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Assessment of protein–ligand complexes in CASP15.
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- Proteins, 2023, v. 91, n. 12, p. 1811, doi. 10.1002/prot.26601
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Automated benchmarking of combined protein structure and ligand conformation prediction.
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- Proteins, 2023, v. 91, n. 12, p. 1912, doi. 10.1002/prot.26605
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New prediction categories in CASP15.
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- Proteins, 2023, v. 91, n. 12, p. 1550, doi. 10.1002/prot.26515
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Critical assessment of methods of protein structure prediction (CASP)—Round XV.
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- Proteins, 2023, v. 91, n. 12, p. 1539, doi. 10.1002/prot.26617
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Critical assessment of methods of protein structure prediction (CASP)—Round XIV.
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- Proteins, 2021, v. 89, n. 12, p. 1607, doi. 10.1002/prot.26237
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Continuous Automated Model EvaluatiOn (CAMEO)—Perspectives on the future of fully automated evaluation of structure prediction methods.
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- Proteins, 2021, v. 89, n. 12, p. 1977, doi. 10.1002/prot.26213
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Critical assessment of methods of protein structure prediction (CASP)—Round XIII.
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- Proteins, 2019, v. 87, n. 12, p. 1011, doi. 10.1002/prot.25823
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Introducing "best single template" models as reference baseline for the Continuous Automated Model Evaluation (CAMEO).
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- Proteins, 2019, v. 87, n. 12, p. 1378, doi. 10.1002/prot.25815
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Estimation of model accuracy in CASP13.
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- Proteins, 2019, v. 87, n. 12, p. 1361, doi. 10.1002/prot.25767
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