User:Karl Oberholser

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Revision as of 19:57, 11 May 2009

Karl Oberholser

Professor of Chemistry, Chemistry and Biochemistry Department, Messiah College, Grantham, PA, USA

I used HyperChem in my first venture in biomolecular visualization and computation. I eventually made some tutorials in which information was passed between HyperChem and Toolbook. When I became aware of Chime, I focused most of my work on protein structure and function and used Protein Explorer and PiPEs as they became available. When MolSlides became a feature of PE, I developed an assignment for biochemistry students to make MolSlides of a protein of their choice. In the early years of this work I received a variety of internal grants from Messiah College, and in more recent years I have been receiving release time from teaching. Realizing that Chime was on its death bed I got serious about learning Jmol during the Summer '07 , and during my Fall '07 sabbatical I ported most of the PiPEs to Jmol and converted the last of the HyperChem scripts to Jmol scripts. For most of this work I used α and β versions of Jmol Tutorial-Authoring Template being made by Eric Martz. My first exposure to Proteopedia was mentoring Emily Forschler as she developed Photosystem II.

Proteopedia Pages

• Fibroins
• Alpha-helical coiled-coil
• Class of globular proteins
• Myoglobin
• User:Karl_Oberholser/Ramachandran_Plots
• Karl_oberholser/PPDK_large - Large frame of a movie of the mechanism of pyruvate phosphate dikinase. The original page with a smaller movie frame and a description of the mechanism is here.
• User:Karl_Oberholser/Phosphoenolpyruvate:Sugar_Phosphotransferase - Large frame of a movie of the mechanism of Enzyme I of the Phosphoenolpyruvate:Sugar Phosphotransferase System. The original page with a smaller movie frame and a description of the system and mechanism is here.
• Complex III of Electron Transport Chain - After illustration of the structures and relative positions of the active peptides, the reactions of the Q cycle are illustrated and explained.

Other structures and tutorials available in Jmol

• Biochemicals - List of biochemicals whose structures can be displayed when a name on the list is selected.
• Collagen
• Acetylcholinesterase
• Carbohydrates - Series of tutorials that focus on aspects of the 3D structure of mono-, di-, and polysaccharides that are not easily illustrated with 2D figures in text books.

Useful Proteopedia Pages

• Help:Editing
• Template:Button_Toggle_Animation