Open Question
Acidic/Basic Sidechains - Fill in the missing sidechains on the following target oligopeptide.
29. Amino Acids
Amino Acid Chart
2:46 minutesProblem 1d
Textbook Question
Draw three-dimensional representations of the following amino acids.
(d) L-tryptophan
Verified step by step guidance1
Understand the structure of L-tryptophan: L-tryptophan is an amino acid with a chiral center. It contains an indole functional group (a bicyclic structure with a benzene ring fused to a pyrrole ring), an amino group (-NH₂), a carboxylic acid group (-COOH), and a side chain attached to the alpha carbon.
Identify the stereochemistry: The 'L' designation indicates that the amino acid is in the L-configuration, which corresponds to the S-configuration for most amino acids (except cysteine). This means the groups around the alpha carbon are arranged in a specific three-dimensional orientation.
Position the groups around the alpha carbon: In a three-dimensional representation, place the alpha carbon at the center. Attach the carboxylic acid group (-COOH) above the plane, the amino group (-NH₂) to the left, the hydrogen atom below the plane, and the indole-containing side chain to the right. This arrangement follows the CORN rule when viewed with the hydrogen atom pointing away.
Draw the indole side chain: The side chain of tryptophan consists of a methylene group (-CH₂) attached to the alpha carbon, which is then connected to the indole group. Represent the indole group as a fused bicyclic structure with alternating double bonds in the benzene ring and a nitrogen atom in the pyrrole ring.
Finalize the three-dimensional drawing: Use wedge-and-dash notation to indicate the spatial arrangement of the groups. Solid wedges represent bonds coming out of the plane toward the viewer, dashed wedges represent bonds going behind the plane, and straight lines represent bonds in the plane. Ensure the stereochemistry matches the L-configuration.
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Key Concepts
Here are the essential concepts you must grasp in order to answer the question correctly.
Amino Acid Structure
Amino acids are organic compounds composed of a central carbon atom, an amino group (-NH2), a carboxyl group (-COOH), a hydrogen atom, and a variable side chain (R group). The side chain determines the unique properties of each amino acid, influencing its role in protein structure and function.
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Charged Amino Acids
Chirality in Amino Acids
Most amino acids, except glycine, are chiral, meaning they exist in two enantiomeric forms that are mirror images of each other. The 'L' and 'D' nomenclature refers to the configuration around the chiral carbon, with L-forms being the predominant type found in proteins. Understanding chirality is essential for accurately representing amino acids in three-dimensional structures.
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Three-Dimensional Molecular Representation
Three-dimensional representations of molecules, such as amino acids, can be depicted using various models, including ball-and-stick and space-filling models. These representations help visualize the spatial arrangement of atoms, bond angles, and molecular geometry, which are crucial for understanding the interactions and functions of amino acids in biological systems.
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