Original URL: http://www.bio.cmu.edu/courses/biochemmols/tRNA_Tour/tRNA_Tour.html
Yeast tRNAPhe: A Tour of the StructureIntroduction: This Chime-based tutorial displays the secondary and tertiary structural features of yeast tRNAPhe. It is designed to complement the description in Saenger, W. (1984) Principles of Nucleic Acid Structure Ch. 15 "tRNA-A Treasury of Stereochemical Information". It is also based on the figures and descriptions in:
Sussman, J.L. et al. (1978) "Crystal Structure of Yeast Phenylalanine Transfer RNA I. Crystallographic Refinement" J. Mol. Biol. 123 607.
Holbrook, S.R. et al. (1978) "II. Structural Features and Functional Implications." J. Mol. Biol. 123 631.
Most of the tRNA Tour uses the "tRNA.pdb" coordinate file. This is the PDB-deposited "6TNA" file without H2O and without Mg2+. In addition, the average B-factors for phosphate groups (from Sussman, et al. ) were added to each of the P ATOM lines for display in Selection 3.
These three-letter abbreviations appear on the images when the indicated residues are labeled. All other residues are identified as the standard A, C, G, or U nucleotides.
Please note: The images displayed in this tutorial require the Chemscape Chime plug-in. In addition to simply displaying the molecular structures on a WWW page, the Chime plug-in allows the viewer to manipulate the image with pull-down menu choices, mouse and keyboard actions, and button-clicks. A demonstration of these additional features can be found at the Chime Features page.
Go to the tRNA Structure Tutorial
[This tutorial is also available as a "RasMol animation", i.e. a set of linked scripts that can be run on a computer using the RasMol v2.6 program. A description of the animation and downloading instructions are on the RasMol Animation page.]
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Dr. William McClure