Resonance and peptide bonds

What is the hybridization state of the nitrogen atom in an amide? At first glance, it would seem logical to say that it is sp³-hybridized, because, like the nitrogen in an amine, the Lewis structure shows three single bonds and a lone pair. The picture looks quite different, though, if we consider another resonance contributor in which the nitrogen has a double bond to the carbonyl carbon: in this case, we would have to say that applicable hybridization is sp², and the bonding geometry trigonal planar rather than tetrahedral.

In fact, the latter picture is more accurate: the lone pair of electrons on an amide nitrogen are not localized in an sp³ orbital, rather, they are delocalized as part of a conjugated pi system, and the bonding geometry around the nitrogen is trigonal planar as expected for sp² hybridization. This is a good illustration of an important point: conjugation and the corresponding delocalization of electron density is stabilizing, thus if conjugation can occur, it probably will.

One of the most important examples of amide groups in nature is the ‘peptide bond’ that links amino acids to form polypeptides and proteins.

Critical to the structure of proteins is the fact that, although it is conventionally drawn as a single bond, the C-N bond in a peptide linkage has a significant barrier to rotation, indicating that to some degree, C-N pi overlap is present - in other words, there is some double bond character, and the nitrogen is sp² hybridized with trigonal planar geometry.

The barrier to rotation in peptide bonds is an integral part of protein structure, introducing more rigidity to the protein's backbone. If there were no barrier to rotation in a peptide bond, proteins would be much more 'floppy' and three dimensional folding would be very different.

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مواضيع ذات صلة

Silicon and carbon compared

Sulfoxonium ylids

Sulfonium ylids

Sulfonium salts as electrophiles

Sulfonium salts

Thioacetals

A sulfoxide-stabilized anion in a synthesis

Sulfur-stabilized anions

Sulfur is a very versatile element

Symmetry in intramolecular crossed Claisen condensations

Intramolecular crossed Claisen ester condensations

Crossed Claisen ester condensations between two different esters