de Melo-Minardi RC - Search Results

1

ENZYMAP: exploiting protein annotation for modeling and predicting EC number changes in UniProt/Swiss-Prot.

Silveira Sde A, de Melo-Minardi RC, da Silveira CH, Santoro MM, Meira W Jr. Silveira Sde A, et al. PLoS One. 2014 Feb 19;9(2):e89162. doi: 10.1371/journal.pone.0089162. eCollection 2014. PLoS One. 2014. PMID: 24586563 Free PMC article.

2

Identification of subfamily-specific sites based on active sites modeling and clustering.

de Melo-Minardi RC, Bastard K, Artiguenave F. de Melo-Minardi RC, et al. Bioinformatics. 2010 Dec 15;26(24):3075-82. doi: 10.1093/bioinformatics/btq595. Epub 2010 Oct 26. Bioinformatics. 2010. PMID: 20980272

3

HydroPaCe: understanding and predicting cross-inhibition in serine proteases through hydrophobic patch centroids.

Gonçalves-Almeida VM, Pires DE, de Melo-Minardi RC, da Silveira CH, Meira W, Santoro MM. Gonçalves-Almeida VM, et al. Bioinformatics. 2012 Feb 1;28(3):342-9. doi: 10.1093/bioinformatics/btr680. Epub 2011 Dec 9. Bioinformatics. 2012. PMID: 22171332

4

Cutoff Scanning Matrix (CSM): structural classification and function prediction by protein inter-residue distance patterns.

Pires DE, de Melo-Minardi RC, dos Santos MA, da Silveira CH, Santoro MM, Meira W Jr. Pires DE, et al. BMC Genomics. 2011 Dec 22;12 Suppl 4(Suppl 4):S12. doi: 10.1186/1471-2164-12-S4-S12. Epub 2011 Dec 22. BMC Genomics. 2011. PMID: 22369665 Free PMC article.

5

aCSM: noise-free graph-based signatures to large-scale receptor-based ligand prediction.

Pires DE, de Melo-Minardi RC, da Silveira CH, Campos FF, Meira W Jr. Pires DE, et al. Bioinformatics. 2013 Apr 1;29(7):855-61. doi: 10.1093/bioinformatics/btt058. Epub 2013 Feb 8. Bioinformatics. 2013. PMID: 23396119

6

Revealing the hidden functional diversity of an enzyme family.

Bastard K, Smith AA, Vergne-Vaxelaire C, Perret A, Zaparucha A, De Melo-Minardi R, Mariage A, Boutard M, Debard A, Lechaplais C, Pelle C, Pellouin V, Perchat N, Petit JL, Kreimeyer A, Medigue C, Weissenbach J, Artiguenave F, De Berardinis V, Vallenet D, Salanoubat M. Bastard K, et al. Nat Chem Biol. 2014 Jan;10(1):42-9. doi: 10.1038/nchembio.1387. Epub 2013 Nov 17. Nat Chem Biol. 2014. PMID: 24240508

7

VERMONT: Visualizing mutations and their effects on protein physicochemical and topological property conservation.

Silveira SA, Fassio AV, Gonçalves-Almeida VM, de Lima EB, Barcelos YT, Aburjaile FF, Rodrigues LM, Meira W Jr, de Melo-Minardi RC. Silveira SA, et al. BMC Proc. 2014 Aug 28;8(Suppl 2 Proceedings of the 3rd Annual Symposium on Biologica):S4. doi: 10.1186/1753-6561-8-S2-S4. eCollection 2014. BMC Proc. 2014. PMID: 25237391 Free PMC article.

8

PDBest: a user-friendly platform for manipulating and enhancing protein structures.

Gonçalves WR, Gonçalves-Almeida VM, Arruda AL, Meira W Jr, da Silveira CH, Pires DE, de Melo-Minardi RC. Gonçalves WR, et al. Bioinformatics. 2015 Sep 1;31(17):2894-6. doi: 10.1093/bioinformatics/btv223. Epub 2015 Apr 24. Bioinformatics. 2015. PMID: 25910698

9

visGReMLIN: graph mining-based detection and visualization of conserved motifs at 3D protein-ligand interface at the atomic level.

Ribeiro VS, Santana CA, Fassio AV, Cerqueira FR, da Silveira CH, Romanelli JPR, Patarroyo-Vargas A, Oliveira MGA, Gonçalves-Almeida V, Izidoro SC, de Melo-Minardi RC, Silveira SA. Ribeiro VS, et al. BMC Bioinformatics. 2020 Mar 11;21(Suppl 2):80. doi: 10.1186/s12859-020-3347-7. BMC Bioinformatics. 2020. PMID: 32164574 Free PMC article.

10

Thermostabilizing mechanisms of canonical single amino acid substitutions at a GH1 β-glucosidase probed by multiple MD and computational approaches.

Rocha REO, Mariano DCB, Almeida TS, CorrêaCosta LS, Fischer PHC, Santos LH, Caffarena ER, da Silveira CH, Lamp LM, Fernandez-Quintero ML, Liedl KR, de Melo-Minardi RC, de Lima LHF. Rocha REO, et al. Among authors: de melo minardi rc. Proteins. 2023 Feb;91(2):218-236. doi: 10.1002/prot.26424. Epub 2022 Oct 10. Proteins. 2023. PMID: 36114781

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