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Proteins are made by linking amino acids

Protein Structure Review and Refinement Introduction. Proteins are made by linking amino acids. Brian Bahnson Dept of Chemistry & Biochemistry, University of Delaware. Several Ways to Visualize Amino Acids. 20 common amino acids . Primary Sequence Secondary Structure.

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Proteins are made by linking amino acids

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  1. Protein Structure Review and Refinement Introduction Proteins are made by linking amino acids Brian Bahnson Dept of Chemistry & Biochemistry, University of Delaware

  2. Several Ways to Visualize Amino Acids

  3. 20 common amino acids

  4. Primary Sequence Secondary Structure

  5. Secondary Structure Tertiary Structure

  6. Tertiary Structure Quaternary Structure Alcohol dehydrogenase is a homotetramer

  7. The Peptide Plane

  8. Peptide Plane Reduces the Number of Parameters Tortion angles  PHI  PSI

  9. Ramachandran plot from htADH core (%) 91.3 % allowed (%) 8.2 % generously allowed 0.4 % disallowed none Ramachandran Plot to Evaluate Outliers of “Good Protein Geometry”

  10. Macromolecular Protein Crystallography

  11. Experimental Data Points vs. Refined Parameters X-ray Diffraction Reflections Experimental Data Points Electron Density Map and Refined Model of Enzyme

  12. RMSD from ideal geometry for htADH structure bonds (Å) 0.007 angles (°) 1.30 dihedrals (°) 23.60 impropers (°) 0.85 RMSD from Ideal Protein Geometry

  13. Least Squares Refinement Summed Over all Atoms and Data Points From Crystallography Made Crystal Clear

  14. Molecular Dynamic Simulation of a designed mini-protein (Trp-cage) From the Duan lab http://www.duanlab.ucdavis.edu/ The movie shown 2 slides ahead is 69.5 MB and can be downloaded here

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