Dr. Osmar Norberto de Souza, PhD - PUCRS - Associate Professor of Bioinformatics & Computational Molecular Biophysics

Dr. Osmar Norberto de Souza

PhD

PUCRS

Associate Professor of Bioinformatics & Computational Molecular Biophysics

Porto Alegre, RS | Brazil

Main Specialties: Biology

Additional Specialties: Structural Bioinformatics, Computational Molecular Biophysics, Modelling & Simulation

ORCID logohttps://orcid.org/0000-0002-4602-1208


Top Author

Dr. Osmar Norberto de Souza, PhD - PUCRS - Associate Professor of Bioinformatics & Computational Molecular Biophysics

Dr. Osmar Norberto de Souza

PhD

Introduction

My qualifications: (a) B.Sc. in physics – UFMG: 1987. (b) Specialization in biotechnology – UFRGS: 1988. (c) M.Sc. in Comp. Model. & Simul. of Mol. & Biol. Processes: 1990 and (d) Ph.D. in Comp. Mol. Biophysics: 1994 - University of London. 1995-1998: I worked in EMSL at PNNL/DOE, USA. 1999-2001: FAPESP Young Investigator at LNLS. 2001: joined PUCRS as a FAPERGS Visiting Researcher. Since June 2002 I am an Associate Professor of Bioinformatics and Computational Molecular Biophysics at PUCRS.

Primary Affiliation: PUCRS - Porto Alegre, RS , Brazil

Specialties:

Additional Specialties:

Research Interests:


View Dr. Osmar Norberto de Souza’s Resume / CV

Metrics

Number of Publications

20

Publications

Number of Profile Views

91

Profile Views

Number of Article Reads

174

Reads

Number of Citations

69

Citations

Education

Feb 1990 - Nov 1994
University of London
Ph.D. in Computational Molecular Biophysics

Top co-authors

Luiz Augusto Basso
Luiz Augusto Basso

Centro de Pesquisas em Biologia Molecular e Funcional

5
Karina S Machado
Karina S Machado

University of São Paulo

5
Diogenes Santiago Santos
Diogenes Santiago Santos

Research Center in Molecular and Functional Biology

4
Duncan D Ruiz
Duncan D Ruiz

Grupo de Pesquisa em Inteligência de Negócio-GPIN

4
Ana T Winck
Ana T Winck

University of São Paulo

3
Francisco M Salzano
Francisco M Salzano

Federal University of Rio Grande do Sul

2

Publications

20Publications

174Reads

69PubMed Central Citations

A selective method for optimizing ensemble docking-based experiments on an InhA Fully-Flexible receptor model.

BMC Bioinformatics 2018 Jun 22;19(1):235. Epub 2018 Jun 22.

Bioinformatics and Biossystems Modeling and Simulation Lab-LABIO, School of Technology, PUCRS, Av. Ipiranga, 6681, Building 32, Room 602, Porto Alegre, RS, Brazil.

View Article
June 2018
3 Reads
2.580 Impact Factor

Activity of 2-(quinolin-4-yloxy)acetamides in Mycobacterium tuberculosis clinical isolates and identification of their molecular target by whole-genome sequencing.

Int J Antimicrob Agents 2018 Mar 23;51(3):378-384. Epub 2017 Aug 23.

Instituto Nacional de Ciência e Tecnologia em Tuberculose (INCT-TB), Centro de Pesquisas em Biologia Molecular e Funcional, Pontifícia Universidade Católica do Rio Grande do Sul, PUCRS, Av. Ipiranga 6681 - Prédio 92A Tecnopuc, Porto Alegre, RS 90619-900, Brazil; Programa de Pós-Graduação em Biologia Celular e Molecular, PUCRS, Porto Alegre, Brazil.

View Article
March 2018
76 Reads
2 Citations
4.300 Impact Factor

Functional, thermodynamics, structural and biological studies of in silico-identified inhibitors of Mycobacterium tuberculosis enoyl-ACP(CoA) reductase enzyme.

Sci Rep 2017 Apr 24;7:46696. Epub 2017 Apr 24.

Instituto Nacional de Ciência e Tecnologia em Tuberculose (INCT-TB), Centro de Pesquisas em Biologia Molecular e Funcional, Pontifícia Universidade Católica do Rio Grande do Sul, 90619-900, Porto Alegre, RS, Brazil.

View Article
April 2017
12 Reads
5.080 Impact Factor

Piperazine derivatives: synthesis, inhibition of the Mycobacterium tuberculosis enoyl-acyl carrier protein reductase and SAR studies.

Eur J Med Chem 2015 Jan 18;90:436-47. Epub 2014 Nov 18.

Instituto Nacional de Ciência e Tecnologia em Tuberculose, Centro de Pesquisas em Biologia Molecular e Funcional, Pontifícia Universidade Católica do Rio Grande do Sul, 90619-900, Porto Alegre, Rio Grande do Sul, Brazil; Programa de Pós-graduação em Biologia Celular e Molecular, Pontifícia Universidade Católica do Rio Grande do Sul, 90619-900, Porto Alegre, Rio Grande do Sul, Brazil. Electronic address:

View Article
January 2015
16 Reads
1 Citation
3.450 Impact Factor

Biochemical and cellular analysis of human variants of the DYT1 dystonia protein, TorsinA/TOR1A.

Hum Mutat 2014 Sep 17;35(9):1101-13. Epub 2014 Jul 17.

Molecular Neurogenetics Unit, Department of Neurology and Center for Molecular Imaging Research, Department of Radiology, Massachusetts General Hospital and Program in Neuroscience, Harvard Medical School, Boston, Massachusetts; Department of Medical Genetics and Applied Genomics, University of Tuebingen, Tübingen, Germany.

View Article
September 2014
11 Reads
5 Citations
5.140 Impact Factor

Context-based preprocessing of molecular docking data.

BMC Genomics 2013 25;14 Suppl 6:S6. Epub 2013 Oct 25.

View Article
August 2014
2 Reads
3.990 Impact Factor

An interval-based algorithm to represent conformational states of experimentally determined polypeptide templates and fast prediction of approximated 3D protein structures.

Int J Bioinform Res Appl 2013 ;9(5):462-86

LABIO, PPGCC, Faculdade de Informática, Pontifícia Universidade Católica do Rio Grande do Sul, Av. Ipiranga, 6681, Prédio 32, Sala 602 90619-900 - Porto Alegre - RS - Brasil.

View Article
March 2014
3 Reads

wFReDoW: a cloud-based web environment to handle molecular docking simulations of a fully flexible receptor model.

Biomed Res Int 2013 11;2013:469363. Epub 2013 Apr 11.

Laboratório de Bioinformática, Modelagem e Simulação de Biossistemas (LABIO), Faculdade de Informática (FACIN), Pontifícia Universidade Católica do Rio Grande do Sul (PUCRS), Porto Alegre, RS, Brazil.

View Article
December 2013
2 Reads
4 Citations

Biochemical characterization of recombinant nucleoside hydrolase from Mycobacterium tuberculosis H37Rv.

Arch Biochem Biophys 2013 Oct 26;538(2):80-94. Epub 2013 Aug 26.

Centro de Pesquisas em Biologia Molecular e Funcional (CPBMF), Instituto Nacional de Ciência e Tecnologia em Tuberculose (INCT-TB), Pontifícia Universidade Católica do Rio Grande do Sul (PUCRS), 6681/92-A Av. Ipiranga, 90619-900 Porto Alegre, RS, Brazil; Programa de Pós-Graduação em Biologia Celular e Molecular, Pontifícia Universidade Católica do Rio Grande do Sul (PUCRS), Porto Alegre, RS, Brazil.

View Article
October 2013
17 Reads
2 Citations
3.020 Impact Factor

Automatic design of decision-tree induction algorithms tailored to flexible-receptor docking data.

BMC Bioinformatics 2012 Nov 21;13:310. Epub 2012 Nov 21.

University of São Paulo, São Carlos, Brazil.

View Article
November 2012
2 Reads
2 Citations
2.580 Impact Factor

Conformational changes in 2-trans-enoyl-ACP (CoA) reductase (InhA) from M. tuberculosis induced by an inorganic complex: a molecular dynamics simulation study.

J Mol Model 2012 May 12;18(5):1779-90. Epub 2011 Aug 12.

LABIO-Laboratório de Bioinformática, Modelagem e Simulação de Biossistemas, PPGCC, Faculdade de Informática, PUCRS, Porto Alegre, RS, Brasil.

View Article
May 2012
3 Reads
5 Citations

FReDoWS: a method to automate molecular docking simulations with explicit receptor flexibility and snapshots selection.

BMC Genomics 2011 Dec 22;12 Suppl 4:S6. Epub 2011 Dec 22.

LABIO - Laboratório de Bioinformática, Modelagem e Simulação de Biossistemas, PPGCC, Faculdade de Informática, PUCRS, Av, Ipiranga, 6681 - Prédio 32, Sala 602, 90619-900, Porto Alegre, RS, Brazil.

View Article
December 2011
2 Reads
2 Citations
3.990 Impact Factor

Effect of the explicit flexibility of the InhA enzyme from Mycobacterium tuberculosis in molecular docking simulations.

BMC Genomics 2011 Dec 22;12 Suppl 4:S7. Epub 2011 Dec 22.

Laboratório de Bioinformática, Modelagem e Simulação de Biossistemas - LABIO, Programa de Pós-Graduação em Ciência da Computação - PPGCC - Faculdade de Informática - PUCRS - Av, Ipiranga, 6681 Prédio 32 - Sala 608, CEP: 90619-900, Porto Alegre, RS, Brasil.

View Article
December 2011
3 Reads
3 Citations
3.990 Impact Factor

Mining flexible-receptor docking experiments to select promising protein receptor snapshots.

BMC Genomics 2010 Dec 22;11 Suppl 5:S6. Epub 2010 Dec 22.

LABIO - Laboratório de Bioinformática, Modelagem e Simulação de Biossistemas, PPGCC, Faculdade de Informática, PUCRS, Av. Ipiranga, 6681 - Prédio 32, sala 602, 90619-900, Porto Alegre, RS, Brazil.

View Article
December 2010
3 Reads
6 Citations
3.990 Impact Factor

Mining the protein data bank with CReF to predict approximate 3-D structures of polypeptides.

Int J Data Min Bioinform 2010 ;4(3):281-99

Laboratório de Bioinformática, Modelagem e Simulação de Biossistemas--LABIO, Programa de Pós-Graduação em Ciência da Computação, Faculdade de Informática, Pontificia Universidade Católica do Rio Grande do Sul, Porto Alegre, RS, Brazil.

View Article
October 2010
2 Reads
0.500 Impact Factor

Evaluation of the impact of functional diversification on Poaceae, Brassicaceae, Fabaceae, and Pinaceae alcohol dehydrogenase enzymes.

J Mol Model 2010 May 16;16(5):919-28. Epub 2009 Oct 16.

Departamento de Genética, Instituto de Biociências, Universidade Federal do Rio Grande do Sul, Caixa Postal 15053, 91501-970, Porto Alegre, RS, Brazil.

View Article
May 2010
2 Reads
5 Citations

Sequence and structural aspects of the functional diversification of plant alcohol dehydrogenases.

Gene 2007 Jul 13;396(1):108-15. Epub 2007 Mar 13.

Departamento de Genética, Instituto de Biociências, Universidade Federal do Rio Grande do Sul, Caixa Postal 15053, 91501-970 Porto Alegre, RS, Brazil.

View Article
July 2007
3 Reads
5 Citations
2.140 Impact Factor

A structural model for chorismate synthase from Mycobacterium tuberculosis in complex with coenzyme and substrate.

Comput Biol Med 2007 Feb 11;37(2):149-58. Epub 2006 Apr 11.

Laboratório de Bioinformática, Modelagem e Simulação de Biossistemas-LABIO, Faculdade de Informática, PUCRS, Brazil.

View Article
February 2007
5 Reads
1 Citation
1.240 Impact Factor

Molecular dynamics simulation studies of the wild-type, I21V, and I16T mutants of isoniazid-resistant Mycobacterium tuberculosis enoyl reductase (InhA) in complex with NADH: toward the understanding of NADH-InhA different affinities.

Biophys J 2005 Aug 20;89(2):876-84. Epub 2005 May 20.

Laboratório de Bioinformática, Modelagem e Simulação de Biossistemas-LABIO, PPGCC, Faculdade de Informática, PUCRS, Porto Alegre, RS, Brazil.

View Article
August 2005
3 Reads
14 Citations
3.970 Impact Factor

Plasmodium falciparum histidine-rich protein II binds to actin, phosphatidylinositol 4,5-bisphosphate and erythrocyte ghosts in a pH-dependent manner and undergoes coil-to-helix transitions in anionic micelles.

Mol Biochem Parasitol 2003 May;128(2):157-66

Centro de Biologia Molecular Estrutural (CEBIME), Laboratório Nacional de Luz Sincrotron (LNLS), CP6192, Campinas, SP CEP 13084-971, Brazil.

View Article
May 2003
4 Reads
12 Citations
2.240 Impact Factor

Top co-authors

Luiz Augusto Basso
Luiz Augusto Basso

Centro de Pesquisas em Biologia Molecular e Funcional

5
Karina S Machado
Karina S Machado

University of São Paulo

5
Diogenes Santiago Santos
Diogenes Santiago Santos

Research Center in Molecular and Functional Biology

4
Duncan D Ruiz
Duncan D Ruiz

Grupo de Pesquisa em Inteligência de Negócio-GPIN

4
Ana T Winck
Ana T Winck

University of São Paulo

3
Francisco M Salzano
Francisco M Salzano

Federal University of Rio Grande do Sul

2