1. Virus Structure Tutorial Shuchismita Dutta, Ph.D. RCSB PDB, 2008

2. Introduction Viruses can cause a variety of diseases from common cold and the flu to serious illnesses such as AIDS, dengue fever, measles, small pox and bird flu. All viruses infect cells and hijack the host cellular machinery for their own benefit. Learning about the biology and structure of viruses can help us better understand the diseases that they cause, their prevention and treatment.

3. Goal Introduction to viruses – what they are made of, how do they survive and propagate. Virus structures – shape and symmetric interaction of proteins, nucleic acids. Hands-on activities List of related resources and additional reading material. Take home message: The shape and structure of proteins are specific for their function.

4. Overview Information –Protein Data Bank –Viruses Building virus models –Paper models –Marshmallow models Dengue virus –Virus maturation Possible directions for lesson plans

5. Basic Information

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8. What is a virus? Organism that causes diseases –Common cold –Flu –AIDS –Bird flu –Polio Electron micrographs of viruses. HIV Aeromonas virus 31 Influenza virus Orf virusHerpes simplex virusSmallopx virus

9. What do Viruses look like? Tailed phages

10. Are viruses living or non-living? (A typical virus life-cycle) http://www.microbiologybytes.com/introduction/structure.html http://www.cliffsnotes.com/WileyCDA/CliffsReviewTopic/Viral-Structure-and-Replication.topicArticleId-8524,articleId-8448.html

11. Viral Infection and Immunity Poliovirus and Rhinovirus August 2001 Molecule of the MonthMolecule of the Month

12. Building Icosahedral Viruses

13. What is an Icosahedron? Icosahedron: a geometric solid with twenty faces. Each face is an equilateral triangle and every vertex of the icosahedron is formed by five triangular faces. Edges 30; Vertices 12; Faces 20

14. The Marshmallow model Students make marshmallow icosahedrons at Princeton Science & Engineering Expo

15. The Paper Model Students make marshmallow icosahedrons at Princeton Science & Engineering Expo

16. The Story of Dengue Virus

17. Dengue Virus Single-stranded RNA virus Causes dengue hemorrhagic fever Transmitted by mosquitoes (Aedes aegypti) Serotypes (DEN-1, 2, 3, 4)

18. Dengue Virus Nature Structural Biology 10, 907 - 912 (2003)

19. Where? World distribution of dengue viruses and their mosquito vector, Aedes aegypti, (2005)

20. Life Cycle of Dengue Virus Nature Reviews Microbiology 3, 13-22 (January 2005) Structural changes in envelope protein, icosahedral shell: Fusion –antiparallel homodimers to parallel homotrimers Maturation – conformational change of immature trimers to homodimers followed by protease cleavage (by furin) to form mature antiparpllel dimers

21. Maturation of Dengue Virus Science 28 March 2008:Vol. 319. no. 5871, pp. 1834 - 1837

22. Nature Reviews Microbiology 3, 13-22 (January 2005) Molecule of the Month, July, 2008 Maturation & Fusion

23. Possible Directions for Lesson Plans

24. A Lesson on Icosahedral Viruses Shapes of proteins (Introduction to PDB) What is a virus? Shapes of viruses Building 3-D models of icosahedral viruses Answering questions about viruses and the icosahedral virus models. Research on a specific disease caused by a virus (e.g. Dengue Fever)

25. Viruses Protein Structure Structure of proteins in virus shells Use of symmetry in assembling viruses Math & Geometry Icosahedrons, helices etc. Vaccines and Antivirals Infection, Prevention & Treatment Rhinovirus or Flu virus or HIV etc. Genetics & Mutation Evolution in viruses Why antiviral treatments need to evolve too Biotechnological uses of Viruses Protein expressing, gene therapy Transcription/Translation How viruses hijack host cells Viruses and cancer

26. Acknowledgements Operated by two members of the RCSB: Supported by: NIGMS The RCSB PDB is a member of the