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Structural Bioinformatics

Analyze and visualize 3D structures of proteins, nucleic acids, and their complexes. Master tools like PyMOL, ChimeraX, and learn about cryo-EM data processing workflows.

Structural Bioinformatics

Syllabus

Foundations3 lessons
  1. Protein Structure and Coordinate Space11 min
  2. The PDB and mmCIF/PDB File Formats11 min
  3. Fetching and Inspecting Structures12 min
Visualization with PyMOL2 lessons
  1. PyMOL: Loading and the Selection Language11 min
  2. PyMOL: Representations, Coloring, and Publication Figures11 min
Programmatic Analysis3 lessons
  1. Programmatic Access with Biopython Bio.PDB11 min
  2. Measuring Distances, Angles, and Dihedrals11 min
  3. Secondary Structure Assignment with DSSP11 min
Analysis & Wrap-up5 lessons
  1. Contacts, Interfaces, and Hydrogen Bonds12 min
  2. Analyzing Ligand Binding Sites12 min
  3. Structural Superposition and Alignment12 min
  4. Structure Quality and Validation12 min
  5. Capstone: An Automated Analysis Pipeline and Where to Go Next12 min