Structural propensities in the heme binding region of apocytochrome b 5 . I. Free peptides

The water‐soluble domain of rat microsomal cytochrome b 5 is a small globular hemoprotein. Under native conditions, the apoprotein consists of a well‐folded hydrophobic core and a 42‐residue loop, which is substantially disordered in solution. Association with the heme cofactor causes the loop to organize into a second well‐folded hydrophobic core encompassing four short helices, H2‐H5. Of these, H3 and H4 are recognized as intrinsically disordered by algorithms that analyze primary structures for folding propensities. Three peptides, spanning H2‐H5, H2‐H3, and H4‐H5, were designed, synthesized, and characterized to identify local structural preferences in the isolated loop. In addition, two replacements (D60R and N57P, which are known to stabilize holocytochrome b 5 ) were introduced individually in the H4‐H5 peptide. Helical content measured by nuclear magnetic resonance and far‐UV circular dichroism spectroscopy in solutions of 2,2,2‐trifluoroethanol revealed that H4 possessed a lower propensity to form the holoprotein structure than H3. Both replacements in H4 resulted in measurable changes in observed overall helical propensities. It was concluded that the prediction of intrinsic disorder was reliable. Furthermore, the stability of the holoprotein did not correlate simply with helical propensities in the disordered regions. © 2008 Wiley Periodicals, Inc. Biopolymers (Pept Sci) 90: 544–555, 2008. This article was originally published online as an accepted preprint. The “Published Online” date corresponds to the preprint version. You can request a copy of the preprint by emailing the Biopolymers editorial office at biopolymers@wiley.com