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| Registros recuperados : 29 | |
| 2. |  | MELO, R. C.; MAZONI, I.; NESHICH, G.; SANTORO, M. M.; MEIRA JUNIOR, W. Protein structure topology comparison based on contact maps. In: ANNUAL INTERNATIONAL CONFERENCE ON INTELLIGENT SYSTEMS FOR MOLECULAR BIOLOGY, 14.; ANNUAL AB3C CONFERENCE, 2., 2006, Fortaleza. Conference Program... Fortaleza: ISCB, 2006. Não paginado. ISMB, X-MEETING 2006. Poster I-5.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 3. | | MELO, R. C.; MAZONI, I.; NESHICH, G.; SANTORO, M. M.; MEIRA JÚNIOR, W. Contacts as the key elements for comparing two protein structures. In: ANNUAL INTERNATIONAL CONFERENCE ON INTELLIGENT SYSTEMS FOR MOLECULAR BIOLOGY, 14.; ANNUAL AB3C CONFERENCE, 2., 2006, Fortaleza. Conference Program... Fortaleza: ISCB, 2006. Não paginado. ISMB, X-MEETING 2006. Poster I-6.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 4. | | MELO, R. C.; GOMIDE, J. S.; MEIRA JUNIOR, W.; LOPES, J. C. D.; NESHICH, G.; SANTORO, M. M. Mining structural signatures in proteins using intrachain interactions. In: INTERNATIONAL CONFERENCE OF THE BRAZILIAN ASSOCIATION FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 3., 2007, São Paulo. Proceedings... Campinas: Embrapa Informática Agropecuária, 2007. p. 133. X-meeting 2007.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 5. | | LIMA, F. L.; CARVALHO, M. A. R. de; APOLÔNIO, A. C. M.; BEMQUERER, M. P.; SANTORO, M. M.; OLIVEIRA, J. S.; ALVIANO, C. S.; FARIAS, L. de M. Actinomycetemcomitin: a new bacteriocin produced by Aggregatibacter (Actinobacillus) actinomycetemcomitans. Journal of Industrial Microbiology and Biotechnology, v. 35, p. 103-110, 2008.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 6. | | LIMA, F. L.; CARVALHO, M. A. R.; SANTORO, M. M.; BEMQUERER, M. P.; OLIVEIRA, J. S.; APOLÔNIO, A. C. M.; ALVIANO, C. S.; FARIAS, L. M. Actinomycetemcomitin: a new bacteriocin produced by Aggregatibacter (Actinobacillus) Actinomycetemcomitans. In: ANNUAL MEETING OF THE SBBq, 36.; IUBMB CONFERENCE, 10., 2007, Salvador, BA. Infectious diseases: biochemistry of parasites, vectors and hosts: program and abstracts. São Paulo, SP: Brazilian Society for Biochemistry and Molecular Biology, 2007.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 7. | | VIANA, P. A.; REZENDE, S. T. de; ALVES, A. de A.; MANFRINI, R. M.; ALVES, R. J.; BEMQUERER, M. P.; SANTORO, M. M.; GUIMARÃES, V. M. Activity of Debaryomyces hansenii UFV-1 alfa-galactosidades against alfa-D-galactophyranoside derivatives. Carbohydrate Research, v. 346, p. 602-605, 2011.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 8. | | MELO, R. C.; RIBEIRO, C.; MURRAY, C. S.; VELOSO, C. J. M.; SILVEIRA, C. H. da; NESHICH, G.; MEIRA JUNIOR, W.; CARCERONI, R. L.; SANTORO, M. M. Finding protein-protein interaction patterns by contact map matching. Genetics and Molecular Research, v. 6, n. 4, p. 946-963, 2007.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 9. | | SANTOS, A. M. C.; OLIVEIRA, J. S. de; BITTAR, E. R.; SILVA, A. L. da; GUIA, M. L. dos; BEMQUERER, M. P.; SANTORO, M. M. Improved purification process of β- and α-tripsin isoforms by ion-exchange choromatography. Brazilian Archives of Biology and technologgy: an International Journal, v.51, n. 4, p. 711-721, jul.-ago., 2008.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 11. | | APOLÔNIO, A. C. M.; CARVALHO, M. A. R.; BEMQUERER, M. P.; SANTORO, M. M.; PINTO, S. Q.; OLIVEIRA, J. S.; SANTOS, K. V.; FARIAS, L. M. Purification and partial characterization of a bacteriocin produced by Eikenella corrodens. Journal of Applied Microbiology, v. 104, p. 508-514, 2008.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 12. | | PIMENTA, A. M. C.; RATES, B.; BLOCH JUNIOR, C.; GOMES, P. C.; SANTORO, M. M.; LIMA, M. E. de; RICHARDSON, M.; CORDEIRO, M. do N. Electrospray ionization quadrupole time-of-flight and matrix-assisted laser desorption/ionization tandem time-of-flight mass spectrometric analyses to solve micro heterogeneity in post-translationally modified peptides from Phoneutria nigriventer (Aranea, Ctenidae) venom. Rapid Communications in Mass Spectrometry, Chichester, UK, v. 19, p. 31-37, 2005.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 13. | | GOMIDE, F. T. F.; SANTOS, A. M. C.; BITTAR, E. R.; VASCONCELOS, A. B.; TEIXEIRA, K. N.; SANTANA, M. A. de; BEMQUERER, M. P.; SANTORO, M. M. Thermodynamic characterization of alfa trypsin at acid pH range. In: ANNUAL MEETING OF THE SBBq, 36.; IUBMB CONFERENCE, 10., 2007, Salvador, BA. Infectious diseases: biochemistry of parasites, vectors and hosts: program and abstracts. São Paulo, SP: Brazilian Society for Biochemistry and Molecular Biology, 2007.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 14. | | VERLY, R. M.; RESENDE, J. M.; COELHO JUNIOR, E. F.; MAGALHÃES, M. T. Q. de; GUIMARÃES, C. F. C. R.; MUNHOZ, V. H. O.; BEMQUERER, M. P.; ALMEIDA, F. C. L.; SANTORO, M. M.; PILÓ-VELOSO, D.; BECHINGER, B. Structure and membrane interactions of the homodimeric antibiotic peptide homotarsinin. Scientific Reports, v. 7, 2017. Article 40854.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 15. | | SILVEIRA, C. H. da; PIRES, D. E. V.; MINARDI, R.; RIBEIRO, C.; VELOSO, C. J. M.; LOPES, J. C. D.; MEIRA JÚNIOR, W.; NESHICH, G.; RAMOS, C. H. I.; HABESCH, R.; SANTORO, M. M. Protein cutoff scanning: a comparative analysis of cutoff dependent and cutoff free methods for prospecting contacts in proteins. Proteins, n. 74, p. 727-743, 2009.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 16. | | RICHARDSON, M.; PIMENTA, A. M. C.; BEMQUERER, M. P.; SANTORO, M. M.; BEIRAO, P. S. L.; LIMA, M. E.; FIGUEIREDO, S. G.; BLOCH JUNIOR, C.; VASCONCELOS, E. A. R.; CAMPOS, F. A. P.; GOMES, P. C.; CORDEIRO, M. N. Comparision of the partial proteomes of the venoms of Brazilian spiders of the genus Phoneutria. Comparative Biochemistry and Physiology, Part C, v. 142, p. 173-187, 2006.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 17. | | FIGUEIREDO, J. E. F.; COELHO, V. T. da S.; COELHO, E. A. F.; OLIVEIRA, J. S. de; SANTORO, M. M.; ALMEIDA, P. L. B. de; De PAOLI, H. C.; CORREA, G. V.; TEIXEIRA, M. A.; MOTTA, A. C. F. Bioquímica molecular como ferramenta para conservação e uso da biodiversidade agrícola tropical: desenvolvimento de marcador imunoquímico para identificação da bactérias endofíticas do milho. Sete Lagoas: Embrapa Milho e Sorgo, 2005. 12 p. (Embrapa Milho e Sorgo. Boletim de Pesquisa e Desenvolvimento, 2).| Biblioteca(s): Embrapa Milho e Sorgo. |
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| 18. | | VERLY, R. M.; RODRIGUES, M. A.; DAGHASTANLI, K. R. P.; DENADAI, A. M. L.; CUCCOVIA, I. M.; BLOCH JÚNIOR, C.; FRÉZARD, F.; SANTORO, M. M.; PILÓ VELOSO, D.; BEMQUERER, M. P. Effect of cholesterol on the interaction of the amphibian antimicrobial peptide DD K with liposomes. Peptides, v. 29, p. 15-24, 2008.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 19. | | MIRANDA, A. A. C.; GOMIDE, F. T. F.; SANTANA, M. A.; TEIXEIRA, K. N.; OLIVEIRA, J. S.; BIONDI, I.; SANTOS, A. M. C.; BEMQUERER, M. P.; SANTORO, M. M. Development and optimization of liquid bovine trypsin formulation for using as a Biopharmaceutical. In: ANNUAL MEETING OF SBBQ, 37.; CONGRESS OF THE PABMB, 11., 2008, Águas de Lindóia, SP. Abstracts... Águas de Lindóia: SBBq, 2008. 1 CD-ROM.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 20. | | RIBEIRO, C.; TOGAWA, R. C.; NESHICH, I. A. P.; MAZONI, I.; MANCINI, A. L.; MINARDI, R. C. de M.; SILVEIRA, C. H. da; JARDINE, J. G.; SANTORO, M. M.; NESHICH, G. Analysis of binding properties and specificity through identification of the interface forming residues (IFR) for serine proteases in silico docked to different inhibitors. BMC Structural Biology, London, v. 10, n. 36, p. 1-16, 2010.| Biblioteca(s): Embrapa Agricultura Digital. |
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| Registros recuperados : 29 | |
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Registro Completo
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Biblioteca(s): |
Embrapa Agricultura Digital. |
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Data corrente: |
07/12/2007 |
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Data da última atualização: |
11/05/2017 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Circulação/Nível: |
Internacional - A |
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Autoria: |
MELO, R. C.; RIBEIRO, C.; MURRAY, C. S.; VELOSO, C. J. M.; SILVEIRA, C. H. da; NESHICH, G.; MEIRA JUNIOR, W.; CARCERONI, R. L.; SANTORO, M. M. |
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Afiliação: |
UFMG; UFMG; UFMG; UFMG; UFMG; GORAN NESHICH, CNPTIA; UFMG; UFMG; UFMG. |
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Título: |
Finding protein-protein interaction patterns by contact map matching. |
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Ano de publicação: |
2007 |
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Fonte/Imprenta: |
Genetics and Molecular Research, v. 6, n. 4, p. 946-963, 2007. |
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Idioma: |
Inglês |
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Conteúdo: |
We propose a novel method for defining patterns of contacts present in protein-protein complexes. A new use of the traditional contact maps (more frequently used for representation of the intra-chain contacts) is presented for analysis of inter-chain contacts. Using an algorithm based on image processing techniques, we can compare protein-protein interaction maps and also obtain a dissimilarity score between them. The same algorithm used to compare the maps can align the contacts of all the complexes and be helpful in the determination of a pattern of conserved interactions at the interfaces. We present an example for the application of this method by analyzing the pattern of interaction of bovine pancreatic trypsin inhibitors and trypsins, chymotrypsins, a thrombin, a matriptase, and a kallikrein - all classified as serine proteases. We found 20 contacts conserved in trypsins and chymotrypsins and 3 specific ones are present in all the serine protease complexes studied. The method was able to identify important contacts for the protein family studied and the results are in agreement with the literature. |
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Palavras-Chave: |
Bioinformática; Contact maps; Interação proteína-proteína; Mapas de contato; Serine proteases. |
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Thesaurus NAL: |
Bioinformatics; protein-protein interactions; Serine proteinases. |
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Categoria do assunto: |
X Pesquisa, Tecnologia e Engenharia |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/159705/1/AP-Finding-2007.pdf
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Marc: |
LEADER 02034naa a2200313 a 4500
001 1000969
005 2017-05-11
008 2007 bl uuuu u00u1 u #d
100 1 $aMELO, R. C.
245 $aFinding protein-protein interaction patterns by contact map matching.$h[electronic resource]
260 $c2007
520 $aWe propose a novel method for defining patterns of contacts present in protein-protein complexes. A new use of the traditional contact maps (more frequently used for representation of the intra-chain contacts) is presented for analysis of inter-chain contacts. Using an algorithm based on image processing techniques, we can compare protein-protein interaction maps and also obtain a dissimilarity score between them. The same algorithm used to compare the maps can align the contacts of all the complexes and be helpful in the determination of a pattern of conserved interactions at the interfaces. We present an example for the application of this method by analyzing the pattern of interaction of bovine pancreatic trypsin inhibitors and trypsins, chymotrypsins, a thrombin, a matriptase, and a kallikrein - all classified as serine proteases. We found 20 contacts conserved in trypsins and chymotrypsins and 3 specific ones are present in all the serine protease complexes studied. The method was able to identify important contacts for the protein family studied and the results are in agreement with the literature.
650 $aBioinformatics
650 $aprotein-protein interactions
650 $aSerine proteinases
653 $aBioinformática
653 $aContact maps
653 $aInteração proteína-proteína
653 $aMapas de contato
653 $aSerine proteases
700 1 $aRIBEIRO, C.
700 1 $aMURRAY, C. S.
700 1 $aVELOSO, C. J. M.
700 1 $aSILVEIRA, C. H. da
700 1 $aNESHICH, G.
700 1 $aMEIRA JUNIOR, W.
700 1 $aCARCERONI, R. L.
700 1 $aSANTORO, M. M.
773 $tGenetics and Molecular Research$gv. 6, n. 4, p. 946-963, 2007.
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Embrapa Agricultura Digital (CNPTIA) |
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