2811_A1 - BIOC2811 Structural Bioinformatics Assignment 1...

Info iconThis preview shows pages 1–7. Sign up to view the full content.

View Full Document Right Arrow Icon
BIOC2811 Structural Bioinformatics Assignment 1 Structure Validation using PROCHECK/RAMPAGE Lai Mei Kwan Michele 2008078522
Background image of page 1

Info iconThis preview has intentionally blurred sections. Sign up to view the full version.

View Full DocumentRight Arrow Icon
Page 2 Introduction In the assignment, the reference protein is 1Y8E and the other one I chose is 2LZ2 . 1Y8E 2LZ2
Background image of page 2
Page 3 Content Comparisons of:- Ramachandran plot Ramachandran plots by residue type χ1-χ2 plots Main-chain bond length distributions Main-chain bond angle distributions.
Background image of page 3

Info iconThis preview has intentionally blurred sections. Sign up to view the full version.

View Full DocumentRight Arrow Icon
Page 4 Ramachandran plot Introduction to Ramachandran plot:- The Ramachandran plot is also called the <φ-ψ plot>. It is plotted with φ value against ψ value. It visualizes dihedral angels φ and ψ of amino acid residues in protein structure. By studying the pattern of the plot, structure of the particular protein can be estimated. For instance, if the dots are concentrated in the region where φ is negative and ψ is positive, the structure probably contains β sheet.
Background image of page 4
Page 5 Ramachandran plot
Background image of page 5

Info iconThis preview has intentionally blurred sections. Sign up to view the full version.

View Full DocumentRight Arrow Icon
Page 6 Ramachandran plot Comment on general Ramachandran plot [1Y8E vs 2LZ2] As shown in the 1Y8E Ramachandran plot, many red dots appeared on the graph when compared to that of the 2LZ2. Red dots indicates non-favoured region. The amount of non- favoured region of 1Y8E is far more than that of 2LZ2, indicating that 1Y8E is a low quality protein.
Background image of page 6
Image of page 7
This is the end of the preview. Sign up to access the rest of the document.

Page1 / 18

2811_A1 - BIOC2811 Structural Bioinformatics Assignment 1...

This preview shows document pages 1 - 7. Sign up to view the full document.

View Full Document Right Arrow Icon
Ask a homework question - tutors are online