Third Year Biochemistry Notes

These notes were made for Biochem 3381 at the University of Western Ontario and cover secondary structure, quaternary structure, protein purification, and miscellaneous biochemistry techniques.

Ramchandran plots and some secondary structure

Quaternary Structure

Misc Techniques

Protein Purification

Bonus! Code in R for generating Ramchandran plots like this one: Ramchandran plot

phi <- c(value,value,value…)

psi <- c(value,value,value…)

residues <- c(“number, residue”,”number, residue”,”number, residue”…)

par(pty=”s”)

plot(x=phi, y=psi,

     xlim=c(-180,180),ylim=c(-180,180), axes=FALSE,

     main=”Your title”,

     pch=20, xlab=expression(phi),

     ylab=expression(psi), cex=1, asp=1.0)

axis(1, at=seq(-180,180,90))

axis(2, at=seq(-180,180,90))

text(phi, psi, labels=residues, cex= 0.7,pos=3)