Question

The amino acid ( \(R\) )-serine is foEven number of switches causes no change in the configurationund in earthworms. Draw the Fischer projection of this amino acid.

Short answer

The Fischer projection of the amino acid (R)-serine has the alpha carbon at the center. On the right side of this central carbon, the hydrogen atom (H) is attached below and the hydroxymethyl group (OH) is attached above. On the left side, the amine group (NH2) is attached above and the carboxyl group (COOH) is attached below.

Step-by-step solution

Understanding (R,S) Configuration

The (R,S) configuration are conventions used in organic chemistry to unambiguously describe the spatial arrangement of atoms within a molecule. (R) refers to rectus and (S) means sinister. For amino acid serine, (R)-serine signifies that it is an isomer where the arrangement of atoms in space is in an (R) rectus configuration. For serine, the structure consists of a carboxyl group COOH, an amine group NH2, a hydrogen atom H and a hydroxymethyl group CH2OH, all attached to a central carbon atom, also known as the alpha carbon.

Drawing Central Carbon Atom

In a Fischer projection, the molecule is represented in two dimensions, where horizontal lines indicate bonds coming out of the plane (towards the observer), and vertical lines represent bonds going in to the plane (away from the observer). Start by drawing the central carbon (alpha carbon). This carbon atom will be at the center of the Fischer projection.

Adding the Functional Groups

For (R)-serine, attach the hydrogen atom H and hydroxyl group OH on the right side, with OH on top and H at bottom. The amino group NH2 and the carboxyl group COOH should be on the left side, with NH2 on top and COOH at the bottom. The order is chosen in accordance with the Cahn-Ingold-Prelog priority rule, and confirms to the (R) rectus configuration.

Final Representation

Ensure that all elements are in the correct place and the structure correctly represents (R)-serine as per Fischer projection rules. The final structure will have the alpha carbon at the center with OH and H on the right side (OH on top, H below) and NH2 and COOH on the left side (NH2 on top, COOH below).

Key concepts

(R,S) Configuration in Chemistry

In the fascinating world of organic chemistry, understanding the spatial arrangement of atoms within molecules is crucial. This is where (R,S) configuration comes into play. It's a notation system used to describe the 3-dimensional orientation of the atoms that are attached to a chiral center. When we look at amino acids, like serine, this configuration tells us how the molecule will interact with polarized light and biological systems.

The terms (R) and (S) come from Latin words 'rectus' and 'sinister,' respectively, meaning 'right' and 'left'. To determine whether a molecule has an (R) or (S) configuration, we first identify the chiral center, usually a carbon atom with four different substituents attached. We then prioritize these substituents based on their atomic number (or certain rules in cases of ties), and imagine a scenario where the lowest-priority group is pointing away from us. If the sequence of groups from highest to lowest priority runs clockwise, the configuration is (R). If it's counterclockwise, then it's (S).

This distinction is not just academic; it has practical implications in biochemistry and pharmacology, as the two configurations of the same molecule (enantiomers) can have vastly different effects in biological systems.

Fischer Projection Rules

The Fischer projection is a two-dimensional representation that allows chemists to depict the 3D structure of molecules like amino acids in a flat, easy-to-understand format. To ensure that these projections are accurate and consistent, there are some simple rules to follow:

Determine the Chiral Centers

First, identify the chiral center(s) in the molecule. These are where the four different groups are attached. In amino acids, there's typically one chiral centre, known as the alpha carbon.

Horizontal and Vertical Lines

In a Fischer projection, horizontal lines represent bonds coming out of the plane of the paper towards the viewer, while vertical lines represent bonds going away. It's like the molecule is a bowtie with the central carbon at the knot.

Position of Main Groups

The most oxidized group (like a carboxyl group, COOH) is traditionally placed at the top. For amino acids, this means the COOH group sits at the top, with NH2 generally at the bottom.

Fixed Orientation

Remember that rotating a Fischer projection by 90 degrees changes the stereochemistry. To modify the structure without altering the configuration, make sure to rotate it by 180 degrees if necessary.

Cahn-Ingold-Prelog Priority Rule

The Cahn-Ingold-Prelog (CIP) priority rule is a set of guidelines used to assign the configuration of stereocenters in molecules. For a chiral center with four different substituents, which is vital to determine (R,S) configuration, the substituents are ranked based on their atomic number—the higher the atomic number, the higher the priority.

If two substituents have the same atomic number, the priority is determined by the atomic numbers of the atoms they are connected to proceeding outwards from the chiral center. In a tie situation, double or triple bonds are treated as if the bonded atoms were duplicated or triplicated.

Here's a simple breakdown:

• The atom with a higher atomic number gets the higher priority.
• If there's a tie, look at the next set of atoms outward from the tiebreaker.
• Multiple bonds count as if the atom appears multiple times.

Applying the CIP rule is crucial for accurately determining the (R,S) configuration. For instance, in the amino acid serine, the COOH group has higher priority than NH2, followed by CH2OH, then H.