Comparison of molecular dynamics and superfamily spaces of protein domain deformation

doi:10.1186/1472-6807-9-6

BMC Structural Biology

Volume 9

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Pascual-Montano A
Orozco M
Carazo JM

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Research article

Comparison of molecular dynamics and superfamily spaces of protein domain deformation

Javier A Velázquez-Muriel¹^,3^* , Manuel Rueda²^,4^,9^* , Isabel Cuesta¹ , Alberto Pascual-Montano⁵ , Modesto Orozco²^,6^,7^,9 and José-María Carazo¹^,8

¹Centro Nacional de Biotecnología-CSIC, Campus Universidad Autónoma, 28049 Madrid, Spain

²Molecular Modeling and Bioinformatics Unit, IRB-BSC Joint Research Program in Computational Biology, Institute for Research in Biomedicine, Josep Samitier 1-5, Barcelona 08028, Spain

³University of California, San Francisco, Department of Biopharmaceutical Sciences and Pharmaceutical Chemistry, 1700 4th St. UCSF/MC 2552, Byers Hall Room 503, San Francisco, CA 94158-2330, USA

⁴The Scripps Research Institute, Department of Molecular Biology, 10550 North Torrey Pines Road, Mail TPC-28, La Jolla, California, 92037, USA

⁵Departament Arquitectura de Computadores y Automática, Facultad de Ciencias Físicas, Universidad Complutense, 28040 Madrid, Spain

⁶Departament de Bioquímica i Biología Molecular, Facultat de Biología, Universitat de Barcelona, Avgda Diagonal 645, Barcelona 08028, Spain

⁷National Institute of Bioinformatics, Parc Científic de Barcelona, Josep Samitier 1-5, Barcelona 08028, Spain

⁸National Institute of Bioinformatics, Centro Nacional de Biotecnología, CSIC, Madrid, Spain

⁹Barcelona Supercomputing Center, Jordi Girona 29, Barcelona 08034, Spain

author email corresponding author email* Contributed equally

BMC Structural Biology 2009, 9:6doi:10.1186/1472-6807-9-6


Published:	17 February 2009

Additional files

Additional file 1:

Table of the domains and superfamilies employed for this study. Table of the domains and superfamilies employed for this study, with their function and structural class. The domains are sorted by the similarity between the SF- and MD-spaces according to the Hess metric.

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