ProblemA4-1 - Computational Biology 03-310/311/510/710 Spring 2004 R F Murphy Problem A4 Predicting and viewing protein structure Due March 4 2004

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Computational Biology 03-310/311/510/710, Spring 2004 R. F. Murphy Page 1 of 1 Problem A4 Predicting and viewing protein structure Due: March 4, 2004 For this assignment you are given the amino acid sequence of a chimeric protein (a chimera in this context is defined as a macromolecule composed of pieces from other macromolecules). The sequence is in a FASTA format file chimera04.fa on the Homework Problems web page. Hand in requested printouts and written answers (with justifications) to the questions. Label your answers clearly. Questions (Total of 40 points) 1. Use MacVector to generate and print a map of predicted secondary structure using the Chou-Fasman and Garnier-Robson methods. What amino acids are part of the longest region that is predicted to be alpha helix by BOTH methods? 2. Use the BLAST server to determine what proteins were used in creating the chimera, and find 3D structures for each. Make a table containing five columns: (1) the names of the individual proteins whose fragments make up
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This note was uploaded on 03/04/2012 for the course BIO 510 taught by Professor Miller during the Fall '06 term at Carnegie Mellon.

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