Inside protein structures: Teaching in three dimensions

Biochemistry and Molecular Biology Education

Volumn 38, Issue 6, 2010, Pages 425-429

  Berry, Colin ^a   Baker, Matthew D ^a  

^a CARDIFF UNIVERSITY   (United Kingdom)

Author keywords

Anaglyph; Molecular structure; Three dimensional images

Indexed keywords

EID: 78649741110     PISSN: 14708175     EISSN: 15393429     Source Type: Journal    
DOI: 10.1002/bmb.20434     Document Type: Article

References (17)

1. K. J. Schönborn, T. R. Anderson ( 2006) The importance of visual literacy in the education of biochemists. Biochem. Mol. Biol. Educ. 34, 94-102.
2. L. Stryer ( 1988) Biochemistry, 3rd ed., W.H. Freeman, New York, 1089 p.
3. A. L. Lehninger, D. L. Nelson, andM. M. Cox ( 2008)Lehninger Principles of Biochemistry, 5th ed., Vol. 29, W. H. Freeman, New York, 1158 p.
4. B. McMahon, R. M. Hanson ( 2008) A toolkit for publishing enhanced figures. J. Appl. Crystallogr. 41 (Part 4), 811-814.
5. D. S. Goodsell ( 2005) Representing structural information with RasMol. Curr. Protoc. Bioinformatics Chapter 5: Unit 5.4.
6. R. A. Sayle, E. J. Milner-White ( 1995) RASMOL: Biomolecular graphics for all. Trends Biochem. Sci. 20, 374.
7. W. L. DeLano ( 2010) The PyMOL Molecular Graphics System. Available at: Accessed on 1 August 2010.
8. L. Potterton, S. McNicholas, E. Krissinel, J. Gruber, K. Cowtan, P. Emsley, G. N. Murshudov, S. Cohen, A. Perrakis, and M. Noble ( 2004) Developments in the CCP4 molecular-graphics project. Acta Crystallogr. D: Biol. Crystallogr. 60 (Part 1), 2288-2294.
9. T. D. Goddard, C. C. Huang, T. E. Ferrin ( 2005) Software extensions to UCSF chimera for interactive visualization of large molecular assemblies. Structure 13, 473-482.
10. T. D. Goddard, C. C. Huang, T. E. Ferrin ( 2007) Visualizing density maps with UCSF Chimera. J. Struct. Biol. 157, 281-287.
11. E. F. Pettersen, T. D. Goddard, C. C. Huang, G. S. Couch, D. M. Greenblatt, E. C. Meng, and T. E. Ferrin ( 2004) UCSF Chimera-A visualization system for exploratory research and analysis. J. Comput. Chem. 25, 1605-1612.
12. N. Guex, M. C. Peitsch ( 1997) SWISS-MODEL and the Swiss-PdbViewer: An environment for comparative protein modeling. Electrophoresis 18, 2714-2723.
13. N. Guex, M. C. Peitsch, andT. Schwede ( 2009) Automated comparative protein structure modeling with SWISS-MODEL and Swiss-PdbViewer: A historical perspective. Electrophoresis 30 ( Suppl 1), S162-S173.
14. J. L. Whittingham, I. Leal, C. Nguyen, G. Kasinathan, E. Bell, A. F. Jones, C. Berry, A. Benito, J. P. Turkenburg, E. J. Dodson, L. M. Ruiz Perez, A. J. Wilkinson, N. G. Johansson, R. Brun, I. H. Gilbert, D. Gonzalez Pacanowska, and K. S. Wilson ( 2005) dUTPase as a platform for antimalarial drug design: Structural basis for the selectivity of a class of nucleoside inhibitors. Structure 13, 329-338.
15. H. L. Hui, J. S. Kavanaugh, M. L. Doyle, A. Wierzba, P. H. Rogers, A. Arnone, J. M. Holt, G. K. Ackers, and R. W. Noble ( 1999) Structural and functional properties of human hemoglobins reassembled after synthesis in Escherichia coli. Biochemistry 38, 1040-1049.
16. + conduction and selectivity. Science 280, 69-77.
17. J. R. Roberts, E. Hagedorn, P. Dillenburg, M. Patrick, and T. Herman ( 2005) Physical models enhance molecular three-dimensional literacy in an introductory biochemistry course. Biochem. Mol. Biol. Educ. 33, 105-110.