Introduction to Structural BioinformaticsIntroduction to Structural Bioinformatics
Quarter: Spring 2004
This course introduces the practical application of structure analysis, database searching and molecular modeling techniques to study protein structure and function. The basic concepts of macromolecular structure are reviewed together with secondary structure calculation and structure-alignment approaches as well as molecular visualization software, and web-based tools. The student will gain practical knowledge in using software techniques to: 1) handle and compare structural information 2) search the Protein Data Bank site 3) interpret protein structure and 4) generate 3D structures on the basis of homology.
Instructor: Helge Weissig; Director, Bioinformatics, ActivX Biosciences, Inc..
| Section ID: | 044792 |
| Time/Date: | M,5:30 p.m. - 8:30 p.m., 4/12/2004 - 5/28/2004 (6 mtgs.) |
| Location: | UCSD Sorrento Mesa Extension Complex, Room 134 |
| Credit: | 3 Units |
Prior classes: Winter Quarter 2001, Spring
Quarter 2003
Please contact the instructor if you have any questions about the course!
| 12-Apr | Basic Introduction, PDB Overview, Visualization, Pet Protein Assignment |
| 19-Apr | Secondary Structure Calculation, Structure Classification |
| 03-May | Structure Determination, Basic Geometry, Structure/Function Assignment |
| 10-May | Structure Alignment, Structure Prediction, Protein Folding |
| 17-May | Protein/Ligand Docking, Molecular Dynamics |
| 28-May | Project Presentations, Wrap-Up |
The course will use the book Structural Bioinformatics, Bourne & Weissig (Editors).
There are no formal pre-requisites for this class. However, a general level of interest in the subject and familarity with basic molecular biology are expected. No programming experience is required and programming exercises will not be part of this course. Students are expected to have access to a computer and the internet via WWW.
All course participants are required to fill out a survey which is solely used to determine the overall level of expertise students bring to the class.
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Some of the materials are made available in PDF format and can be viewed with the freely available Acrobat Reader |
| Students are expected to work with rasmol. All necessary browser configuration steps are described here . PLEASE INSTALL: rasmol, rasmol help file, chime (PC versions), others: 68K Mac, MacOSX | |
The good news is that there will be no mid-term or final exam. Grades for the course (required by UCSD Extension) will be assigned based on course participation including attendance (10%), 2 short quizzes covering course material discussed the week before (20%) and the home work project which is due in it's final form at the beginning of the last day of classes (70%).
In addition to the required text, Structural Bioinformatics, please refer to the list of bioinformatics and structural biology books maintained for all courses taught by the instructor.
Find other structural biology and bioinformatics books: 
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| Introduction to Structural Bioinformatics | Course Overview | © 2001-2004 Helge Weissig |