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A dynamic N‐capping motif in cytochrome b5: Evidence for a pH‐controlled conformational switch

Apocytochrome b5 is a marginally stable protein exhibiting under native conditions a slow conformational exchange in its C‐terminal region. The affected elements of secondary structure include a 310‐helix containing at its N‐terminus a histidine Ncap and a subsequent proline. Participation of the neutral histidine side‐chain in backbone amide capping lowers the imidazole pKa. To explore the nature of the conformational exchange in the protein and determine whether it is related to cis–trans isomerization of the His–Pro bond, three octapeptides encompassing the helix were synthesized and studied by NMR spectroscopy. One corresponded to the wild‐type sequence, the second was the D‐histidine epimer, and the third contained an alanine in place of the proline. It was found that the rates of cis–trans interconversion in the proline‐containing peptides were slower than the rates of the conformational exchange in the protein. In addition, the wild‐type peptide hinted at a predisposition for Ncap formation when in the trans configuration. Analysis of the pH response of the peptides and protein suggested that at pH near neutral, the conformational exchange detected in the protein involved only species with a trans His–Pro bond and could be approximated with a three‐state model by which the terminal helix sampled a locally unfolded state. This state, which contained an uncapped histidine with a normal pKa, partitioned into neutral and protonated populations according to pH. The intrinsic conformational bias of the wild‐type peptide and the pH‐driven equilibria illustrated how a 310‐element could serve as a nucleation site for structural rearrangement. Proteins 2006. © 2005 Wiley‐Liss, Inc.