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| Registros recuperados : 190 | |
| 101. |  | MAZONI, I.; SALIM, J. A; NESHICH, I. A. P.; MORAES, F. R. de; NISHIMURA, L.; JARDINE, J. G.; NESHICH, G. Structure function relationship de convoluted to a level of physical chemical descriptors: case study - lysozyme / lactalbumine differences. In: ANNUAL MEETING OF THE SBBq, 40., 2011, Foz do Iguaçu. [Proceedings...]. São Paulo, SP: Brazilian Society for Biochemistry and Molecular Biology, 2011. Não paginado.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 102. | | MAZONI, I.; SALIM, J. A.; YANO, I. H.; MORAES, F. R.; CARVALHO, J. G.; JARDINE, J. G.; NESHICH, I.; NESHICH, G. Prediction of a-helix using data mining decision tree technique. In: REUNIÃO ANUAL DA SOCIEDADE BRASILEIRA DE BIOQUÍMICA E BIOLOGIA MOLECULAR, 41., 2012, Foz do Iguaçu. Resumos... [S.l]: SBBq, 2012. Não paginado. Poster.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 103. | | FALCÃO, P. R. K.; MAZONI, I.; YAMAGISHI, M. E. B.; BORRO, L. C.; JARDINE, J. G.; SANTOS, E. H. dos; OLIVEIRA, S. R. de M.; NESHICH, G. Protein ligand contacts analyzed in an integrated environment with the other sequence and structure related parameters. In: ANNUAL INTERNATIONAL CONFERENCE ON INTELLIGENT SYSTEMS FOR MOLECULAR BIOLOGY, 14.; ANNUAL AB3C CONFERENCE, 2., 2006, Fortaleza. Conference Program... Fortaleza: ISCB, 2006. Não paginado. Na publicação: Paula Kuser, Stanley R. M. Oliveira. ISMB, X-MEETING 2006. Poster I-49.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 104. | | NARCISO, M. G.; YAMAGISHI, M. E. B.; QUINAGLIA, T.; SANTOS, E. H. dos; VIEIRA, F. D.; JARDINE, J. G.; MAZONI, I.; FALCAO, P. R. K.; NESHICH, G. Projeções de superfície 3D no plano para análise de interfaces proteicas através do Sting. Campinas: Embrapa Informática Agropecuária, 2006. 5 p. (Embrapa Informática Agropecuária. Comunicado técnico, 78). Na publicação: Goran Neshich.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 105. | | VINCENTZ, M.; LEITE, A.; MATTAR, S. C. M. da; NESHICH, G.; BARROS, L.; WEINBERG, D.; ALMEIDA, E. R. de; PAES, C. M. de; ARAGAO, F.; GANDER, E. S. ACGT and vicilin core sequences in an essential seed specific promoter region from Brazil nut albumin gene recognized by the opaque-2 regulatory protein. In: ENCUENTRO LATINO AMERICANO DE BIOTECNOLOGIOA VEGETAL, 2.,1995, Puerto Iguazu, Argentina. REDBIOS95. [S.1.:s.n.],1995. n.D-23.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 106. | | VINCENTZ, M.; LEITE, A.; NESHICH, G.; VRIED, G.; MATTAR, C.; BARROS, L.; WEINBERG, D.; ALMEIDA, E. R. de; PAES de CARVALHO, M.; ARAGÃO, F.; GANDER, E. ACGT and vicilin core sequences in a promoter domain required for seed-specific expression of a 2S storage protein gene are recognized by the opaque-2 regulatory protein. Plant Molecular Biology, v. 34, n. 6, p. 879-889, 1997.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 107. | | CARVALHO, P. G. B. de; BLOCH JUNIOR, C.; MORHY, L.; SILVA, M. C. M. da; MELLO, L. V. de; NESHICH, G. The amino acid sequence of the Phaseolus vulgaris var. "Fogo na Serra" inhibitor and interactive surface modeling for the enzyme inhibitor complex. Journal of Protein Chemistry, New York, v.15, n.6, p.591-598, 1996.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 108. | | MORAES, F. R. de; NESHICH, I. A. P.; MAZONI, I.; YANO, I. H.; PEREIRA, J. G. C.; SALIM, J. A.; JARDINE, J. G.; NESHICH, G. Improving predictions of protein-protein interfaces by combining amino acid-specific classifiers based on structural and physicochemical descriptors with their weighted neighbor averages. Plos One, San Francisco, v. 9, n. 1, p. 1-15, Jan. 2014.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 109. | | DIAS-LOPES, C.; NESHICH, I. A. P.; NESHICH, G.; ORTEGA, J. M.; GRANIER, C.; CHÁVEZ-OLORTEGUI, C.; MOLINA, F.; FELICORI, L. Identification of new Sphingomyelinases D in pathogenic fungi and other pathogenic organisms. PLoS ONE, San Francisco, v. 8, n. 11, p. 1-12, 2013.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 110. | | CAMPEIRO, J. D'A.; NESHICH, I. P.; SANT'ANNA, O. A.; LOPES, R.; IANZER, D.; ASSAKURA, M. T.; NESHICH, G.; HAYASHI, M. A. F. Identification of snake bradykinin-potentiating peptides (BPPs)-simile sequences in rat brain: potential BPP-like precursor protein? Biochemical Pharmacology, New York, v. 96, n. 3, p. 202-215, Aug. 2015.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 112. | | JARDINE, J. G.; MAZONI, I.; MANCINI, A. L.; BORRO, L. C.; ALVARENGA, D.; CECÍLIO, P. L.; PELLIGRINELLI, T. V.; NESHICH, G. How did the structure function descriptors of proteins change with introduction of 'remediated' PDB files. In: RED IBEROAMERICANA DE BIOINFORMÁTICA CONGRESS, 5., 2008, Santiago. Program and abstracts... Santiago. Pontificia Universidade Católica de Chile, 2008. p. 15.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 113. | | MACHADO-DE-ÁVILA, R. A.; VELLOSO, M.; OLIVEIRA, D.; STRANSKY, S.; FLOR-SÁ, A.; SCHNEIDER, F. S.; NESHICH, G.; CHÁVEZ-OLÓRTEGUI, C. Induction of neutralizing antibodies against mutalysin-II from Lachesis muta muta Snake Venom Elicited by a conformational B-cell epitope predicted by Blue Star Sting data base. Immunome Research, v. 11, n. 1, Mar. 2015. Não paginado.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 115. | | 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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| 116. | | MORAES, F. R. de; VILLANUEVA, W. J. P.; NESHICH, I. A. P.; MAZONI, I.; NISHIMURA, L.; SALIM, J. A.; JARDINE, J. G.; VON ZUBEN, F.; NESHICH, G. SIPEPPI, a systematic neuron network-based methodology for predicting protein-protein interfaces using STING database descriptors. In: ANNUAL MEETING OF THE SBBq, 40., 2011, Foz do Iguaçu. [Proceedings...]. São Paulo, SP: Brazilian Society for Biochemistry and Molecular Biology, 2011. Não paginado.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 118. | | BEZERRA, I. C.; ALMEIDA, E. R. P. de; CASTRO, L. A. B. de; NESHICH, G.; VALLE, M.; MONTE-NESHICH, D. de C. Two globulin isoforms codified by a single precursor gene from taro (Colocasia esculenta L.). In: ENCONTRO BRASILEIRO DE BIOTECNOLOGIA VEGETAL, 1., 1993, Brasilia.Programa e resumos. Brasilia: EMBRAPA-CENARGEN, 1993. Poster 011. Resumo| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 119. | | NARCISO, M. G.; YAMAGISHI, M. E. B.; NESHICH, G.; FALCAO, P.; HENRIQUE, E.; VIEIRA, F. D.; JARDINE, J. G.; MAZONI, I. Transformação de imagens 3D para 2D para análise de proteínas usando o software Sting. In: CONGRESSO DE COMPUTAÇÃO DO SUL DE MATO GROSSO, 2., 2006, Rondonópolis. Computação e educação: anais. Rondonópolis: UFMT, 2006. p. 176-184. COMPSULMT 2006.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 120. | | NESHICH, G.; NESHICH, I. A. P.; MORAES, F.; SALIM, J. A.; BORRO, L.; YANO, I. H.; MAZONI, I.; JARDINE, J. G.; ROCCHIA, W. Using structural and physical-chemical parameters to identify, classify, and predict functional districts in proteins-the role of electrostatic potential. In: ROCCHIA, W.; SPAGNUOLO, M. (Ed.). Computational electrostatics for biological applications: geometric and numerical approaches to the description of electrostatic interaction between macromolecules. Cham: Springer, 2015. Chapter 12. p. 227-254.| Biblioteca(s): Embrapa Agricultura Digital. |
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| Registros recuperados : 190 | |
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 | Acesso ao texto completo restrito à biblioteca da Embrapa Agricultura Digital. Para informações adicionais entre em contato com cnptia.biblioteca@embrapa.br. |
Registro Completo
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Biblioteca(s): |
Embrapa Agricultura Digital. |
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Data corrente: |
25/04/2006 |
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Data da última atualização: |
17/01/2020 |
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Tipo da produção científica: |
Resumo em Anais de Congresso |
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Autoria: |
HIGA, R. H.; CRUZ, S. A. B. da; FALCAO, P. R. K.; YAMAGISHI, M. E. B.; FILETO, R.; MANCINI, A. L.; NESHICH, G. |
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Afiliação: |
ROBERTO HIROSHI HIGA, CNPTIA; SERGIO APARECIDO BRAGA DA CRUZ, CNPTIA; PAULA REGINA KUSER FALCAO, CNPTIA; MICHEL EDUARDO BELEZA YAMAGISHI, CNPTIA; RENATO FILETO, CNPTIA; ADAUTO LUIZ MANCINI, CNPTIA; GORAN NESIC, CNPTIA. |
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Título: |
Building multiple sequence alignments with a flavour of HSSP alignments. |
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Ano de publicação: |
2005 |
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Fonte/Imprenta: |
In: X-MEETING; INTERNATIONAL CONFERENCE OF THE AB3C, 1., 2005, Caxambu. [Proceedings...]. [S.l.]: Associação Brasileira de Bioinformática e Biologia Computacional, 2005. |
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Páginas: |
p. 28. |
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Idioma: |
Inglês |
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Notas: |
X-meeting 2005. Presented Posters. Na publicação: Paula Regina Kuser. |
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Conteúdo: |
HSSP is a well-know database of MSAs which merges information of protein sequences and their three-dimensional structures. It is available for all proteins whose structure is deposited in the PDB databank. It is also used by STING and JavaProtein Dossier to calculate and present relative entropy as a measurement of a degree of conservation for each residue of proteins whose structure has been solved and deposited in the PDB. However, if the STING and JavaProtein Dossier are to provide support for analysis of protein structures modeled in computers or being experimentally solved but not yet deposited in the PDB, then we have to have a new method for building alignments having a flavour of HSSP alignments (myMSAr). This work presents this new method and its corresponding databank (SH2Qs - database of Sequences Homologue to the Query [Structure-having] Sequence). Our main interest on making myMSAr was to measure the degree of residue conservation for a given query sequence, regardless if it has a corresponding structure deposited in the PDB databank. In this work, we compare the measurement of residue conservation provided by corresponding alignments produced by the HSSP and SH2Qs. As a case study, we also present two biologically relevant examples, the former one highlighting the equivalence of analysis of a degree of residue conservation by using HSSP or SH2Qs alignments, and the later one presenting the degree of residue conservation for a structure modeled in a computer and, as a consequence, which does not have alignment reported by HSSP. MenosHSSP is a well-know database of MSAs which merges information of protein sequences and their three-dimensional structures. It is available for all proteins whose structure is deposited in the PDB databank. It is also used by STING and JavaProtein Dossier to calculate and present relative entropy as a measurement of a degree of conservation for each residue of proteins whose structure has been solved and deposited in the PDB. However, if the STING and JavaProtein Dossier are to provide support for analysis of protein structures modeled in computers or being experimentally solved but not yet deposited in the PDB, then we have to have a new method for building alignments having a flavour of HSSP alignments (myMSAr). This work presents this new method and its corresponding databank (SH2Qs - database of Sequences Homologue to the Query [Structure-having] Sequence). Our main interest on making myMSAr was to measure the degree of residue conservation for a given query sequence, regardless if it has a corresponding structure deposited in the PDB databank. In this work, we compare the measurement of residue conservation provided by corresponding alignments produced by the HSSP and SH2Qs. As a case study, we also present two biologically relevant examples, the former one highlighting the equivalence of analysis of a degree of residue conservation by using HSSP or SH2Qs alignments, and the later one presenting the degree of residue conservation for a structure modeled in a computer and... Mostrar Tudo |
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Palavras-Chave: |
Entropia relativa; Multiple sequence alignment; Relative entropy; Residue conservation. |
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Thesagro: |
Proteina. |
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Thesaurus NAL: |
Sequence alignment. |
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Categoria do assunto: |
-- |
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Marc: |
LEADER 02541nam a2200277 a 4500
001 1008967
005 2020-01-17
008 2005 bl uuuu u00u1 u #d
100 1 $aHIGA, R. H.
245 $aBuilding multiple sequence alignments with a flavour of HSSP alignments.$h[electronic resource]
260 $aIn: X-MEETING; INTERNATIONAL CONFERENCE OF THE AB3C, 1., 2005, Caxambu. [Proceedings...]. [S.l.]: Associação Brasileira de Bioinformática e Biologia Computacional$c2005
300 $ap. 28.
500 $aX-meeting 2005. Presented Posters. Na publicação: Paula Regina Kuser.
520 $aHSSP is a well-know database of MSAs which merges information of protein sequences and their three-dimensional structures. It is available for all proteins whose structure is deposited in the PDB databank. It is also used by STING and JavaProtein Dossier to calculate and present relative entropy as a measurement of a degree of conservation for each residue of proteins whose structure has been solved and deposited in the PDB. However, if the STING and JavaProtein Dossier are to provide support for analysis of protein structures modeled in computers or being experimentally solved but not yet deposited in the PDB, then we have to have a new method for building alignments having a flavour of HSSP alignments (myMSAr). This work presents this new method and its corresponding databank (SH2Qs - database of Sequences Homologue to the Query [Structure-having] Sequence). Our main interest on making myMSAr was to measure the degree of residue conservation for a given query sequence, regardless if it has a corresponding structure deposited in the PDB databank. In this work, we compare the measurement of residue conservation provided by corresponding alignments produced by the HSSP and SH2Qs. As a case study, we also present two biologically relevant examples, the former one highlighting the equivalence of analysis of a degree of residue conservation by using HSSP or SH2Qs alignments, and the later one presenting the degree of residue conservation for a structure modeled in a computer and, as a consequence, which does not have alignment reported by HSSP.
650 $aSequence alignment
650 $aProteina
653 $aEntropia relativa
653 $aMultiple sequence alignment
653 $aRelative entropy
653 $aResidue conservation
700 1 $aCRUZ, S. A. B. da
700 1 $aFALCAO, P. R. K.
700 1 $aYAMAGISHI, M. E. B.
700 1 $aFILETO, R.
700 1 $aMANCINI, A. L.
700 1 $aNESHICH, G.
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