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Doctoral Thesis
DOI
https://doi.org/10.11606/T.42.2009.tde-16072009-100344
Document
Author
Full name
Alexandre Moutran
Institute/School/College
Knowledge Area
Date of Defense
Published
São Paulo, 2009
Supervisor
Committee
Ferreira, Rita de Cassia Cafe (President)
Costa, Sergio Olavo Pinto da
Farah, Shaker Chuck
Quaggio, Ronaldo Bento
Winter, Carlos Eduardo
Title in Portuguese
Modelagem molecular das proteínas captadoras de molibdato (ModA) e oligopeptídeos (OppA) de Xanthomonas axonopodis pv. citri .
Keywords in Portuguese
Bioinformática
Microbiologia
Modelagem molecular
Oligopeptídeos
Proteínas de transporte
Xanthomonas
Abstract in Portuguese
Sistemas de transporte tipo ABC são responsáveis pelo transporte de uma grande variedade de substâncias dentre elas os oligopeptídeos e molibdato. Neste trabalho estudamos dois sistemas de transportadores do tipo ABC (mod, envolvido na captação de molibdato e o opp na capação de oligopeptídeos) presentes na bactéria Xanthomonas axonopodis pv. citri (Xac). Em particular analisamos a organização genética dos óperons mod e as proteínas ModA e OppA, componentes solúveis localizados no periplasma e responsáveis pela ligação aos substratos. Por meio de técnicas de modelagem molecular, definimos modelos estruturais para as proteínas ModA e OppA. Para a proteína ModA caracterizamos cinco resíduos que compõem a cavidade ligadora e são responsáveis pelas interações com o íon molibdato, assim como a sua similaridade estrutural e sequencial com ortólogos de 3 grupos distintos de bactérias. Para a OppA, descrevemos o seu comportamento na ancoragem de diferentes oligopeptídeos. Avaliamos parâmetros como a extensão da cadeia e estabelecemos uma ordem crescente de afinidade entre os oligopeptídeos com diferente composição residual e a proteína OppA.
Title in English
Molecular modeling of molibdate (ModA) and oligopeptide (OppA) uptake proteins in Xanthomonas axonopodis pv. citri.
Keywords in English
Bioinformatics
Microbiology
Molecular Modeling
Oligopeptídeos
Protein transport
Xanthomonas
Abstract in English
ABC transport system are responsable for the uptake of a large variety of substrates, including oligopeptides and molybdate. In this work we studied two ABC transporter systems (mod and opp responsable for molybdate and oligopeptide uptake, respectively) present in plant pathogen Xanthomonas axonopodis pv. citri (Xac). We investigated the genetic organization of mod operon and, particularly, structural feature of periplasmic components, ModA and OppA proteins, of the uptake systems. Using molecular modeling techniques, we defined the structural models of both ModA and OppA proteins. Based on the ModA structural model, amino acid residues involved in molybdate interaction were identified. In addition, both the structural and sequence similarities of Xac ModA and other bacterial orthologs with experimentally defined structural organizations were described. Based on the OppA structural model, we applied molecular docking tools to determine the binding specificity for different oligopeptide regarding number and amino acid composition. Collectively, our results represent an important contribution to the study of ABC transporters in an economically relevant phytopathogen bacterial species.
 
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Publishing Date
2009-08-17
 
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