Exploring the potential of structure-based deep learning approaches for T cell receptor design.

Autor: Ribeiro-Filho HV; Brazilian Biosciences National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, São Paulo, Brazil., Jara GE; Brazilian Biosciences National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, São Paulo, Brazil., Guerra JVS; Brazilian Biosciences National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, São Paulo, Brazil.; Graduate Program in Pharmaceutical Sciences, Faculty of Pharmaceutical Sciences, University of Campinas, Campinas, São Paulo, Brazil., Cheung M; Institute for Bioscience and Biotechnology Research, University of Maryland, Rockville, Maryland, United States of America.; Department of Chemistry and Biochemistry, University of Maryland, College Park, Maryland, United States of America., Felbinger NR; Institute for Bioscience and Biotechnology Research, University of Maryland, Rockville, Maryland, United States of America.; Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, Maryland, United States of America., Pereira JGC; Brazilian Biosciences National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, São Paulo, Brazil., Pierce BG; Institute for Bioscience and Biotechnology Research, University of Maryland, Rockville, Maryland, United States of America.; Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, Maryland, United States of America., Lopes-de-Oliveira PS; Brazilian Biosciences National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, São Paulo, Brazil.; Graduate Program in Pharmaceutical Sciences, Faculty of Pharmaceutical Sciences, University of Campinas, Campinas, São Paulo, Brazil.

Publikováno v: PLoS computational biology [PLoS Comput Biol] 2024 Sep 30; Vol. 20 (9), pp. e1012489. Date of Electronic Publication: 2024 Sep 30 (Print Publication: 2024).

KVFinder-web: a web-based application for detecting and characterizing biomolecular cavities.

Autor: Guerra JVS; Brazilian Biosciences National Laboratory (LNBio), Brazilian Center for Research in Energy and Materials (CNPEM), Campinas, São Paulo, 13083-100, Brazil.; Graduate Program in Pharmaceutical Sciences, Faculty of Pharmaceutical Sciences, University of Campinas, Campinas, São Paulo, 13083-871, Brazil., Ribeiro-Filho HV; Brazilian Biosciences National Laboratory (LNBio), Brazilian Center for Research in Energy and Materials (CNPEM), Campinas, São Paulo, 13083-100, Brazil., Pereira JGC; Brazilian Biosciences National Laboratory (LNBio), Brazilian Center for Research in Energy and Materials (CNPEM), Campinas, São Paulo, 13083-100, Brazil., Lopes-de-Oliveira PS; Brazilian Biosciences National Laboratory (LNBio), Brazilian Center for Research in Energy and Materials (CNPEM), Campinas, São Paulo, 13083-100, Brazil.; Graduate Program in Pharmaceutical Sciences, Faculty of Pharmaceutical Sciences, University of Campinas, Campinas, São Paulo, 13083-871, Brazil.

Publikováno v: Nucleic acids research [Nucleic Acids Res] 2023 Jul 05; Vol. 51 (W1), pp. W289-W297.

First Nonphosphorylated Inhibitors of Phosphoglucose Isomerase Identified by Chemical Library Screening.

Autor: Mota SGR; 1 Brazilian Bioscience National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, SP, Brazil.; 2 Institute of Biology, University of Campinas, Campinas, SP, Brazil., Mercaldi GF; 1 Brazilian Bioscience National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, SP, Brazil., Pereira JGC; 1 Brazilian Bioscience National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, SP, Brazil., Oliveira PSL; 1 Brazilian Bioscience National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, SP, Brazil., Rodriguez A; 3 New York University School of Medicine, Department of Microbiology, New York, NY, USA., Cordeiro AT; 1 Brazilian Bioscience National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, SP, Brazil.

Publikováno v: SLAS discovery : advancing life sciences R & D [SLAS Discov] 2018 Dec; Vol. 23 (10), pp. 1051-1059. Date of Electronic Publication: 2018 Jul 11.

Crystal Structure and Regulation of the Citrus Pol III Repressor MAF1 by Auxin and Phosphorylation.

Autor: Soprano AS; Brazilian Nacional Biosciences Laboratory (LNBio), Brazilian Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas, São Paulo, Brazil., Giuseppe PO; Brazilian Bioethanol Science and Technology Laboratory (CTBE), Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas, São Paulo, Brazil., Shimo HM; Brazilian Nacional Biosciences Laboratory (LNBio), Brazilian Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas, São Paulo, Brazil., Lima TB; Brazilian Nacional Biosciences Laboratory (LNBio), Brazilian Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas, São Paulo, Brazil; Institute of Chemistry, State University of Campinas, Campinas, São Paulo, Brazil., Batista FAH; Brazilian Nacional Biosciences Laboratory (LNBio), Brazilian Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas, São Paulo, Brazil., Righetto GL; Brazilian Nacional Biosciences Laboratory (LNBio), Brazilian Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas, São Paulo, Brazil., Pereira JGC; Brazilian Nacional Biosciences Laboratory (LNBio), Brazilian Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas, São Paulo, Brazil., Granato DC; Brazilian Nacional Biosciences Laboratory (LNBio), Brazilian Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas, São Paulo, Brazil., Nascimento AFZ; XALOC Beamline, Experiments Division, ALBA Synchrotron Light Source, Cerdanyola del Vallès, 08290 Barcelona, Spain; Structural Biology, Molecular Biology Institute of Barcelona (IBMB-CSIC), Carrer Baldiri Reixac 15, 3 A17, 08028 Barcelona, Spain., Gozzo FC; Institute of Chemistry, State University of Campinas, Campinas, São Paulo, Brazil., de Oliveira PSL; Brazilian Nacional Biosciences Laboratory (LNBio), Brazilian Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas, São Paulo, Brazil., Figueira ACM; Brazilian Nacional Biosciences Laboratory (LNBio), Brazilian Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas, São Paulo, Brazil., Smetana JHC; Brazilian Nacional Biosciences Laboratory (LNBio), Brazilian Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas, São Paulo, Brazil., Paes Leme AF; Brazilian Nacional Biosciences Laboratory (LNBio), Brazilian Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas, São Paulo, Brazil., Murakami MT; Brazilian Bioethanol Science and Technology Laboratory (CTBE), Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas, São Paulo, Brazil., Benedetti CE; Brazilian Nacional Biosciences Laboratory (LNBio), Brazilian Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas, São Paulo, Brazil. Electronic address: celso.benedetti@lnbio.cnpem.br.

Publikováno v: Structure (London, England : 1993) [Structure] 2017 Sep 05; Vol. 25 (9), pp. 1360-1370.e4. Date of Electronic Publication: 2017 Aug 03.