Chem 336 - Spring 2002
Organic Chemistry III
Dr. Carl C. Wamser
know the terminology:
amino acid, essential amino acid, amino acid residue
peptide, polypeptide, protein, enzyme
N-terminus, C-terminus, alpha-helix, beta-sheet
zwitterion, isoelectric point, electrophoresis
nucleic acid, DNA, RNA, m-RNA, t-RNA, r-RNA, nucleoside, nucleotide, base-pairing, ribosomes, replication, transcription, translation, codon, anticodon
know the structures of the 20 common amino acids by name and 3-letter abbreviation
know the approximate pKa values for the amino acids
know the specific complementary base pairs:
A - T and G - C in DNA
A - U and G - C in RNA
know the structures of the 5 nucleic acid bases and their nucleosides and nucleotides
for quizzes and exams, the codon assignment table will be given if needed
understand the relationship between the pKa values of amino acids and peptides and the different ionization states they may assume in solutions depending on the pH
understand the classification systems for proteins
based on composition (simple or conjugated)
based on shape and solubility (fibrous (insoluble) or globular (soluble))
based on function (enzymes, structural, etc.)
understand the classification system for protein structural features:
primary: amino acid sequence
secondary: chain conformations (alpha-helix, beta-sheet)
tertiary: 3-d structure of the entire protein
quaternary: interactions of multiple polypeptide chains
recognize the various reactions of amino acids and peptides:
peptide bonding
disulfide bonding
ninhydrin test
Edman degradation
BOC protecting group
cleavage by chymotrypsin and trypsin
recognize the structural components of nucleotides and nucleic acids, including directionality (5' and 3' ends)
recognize the specificity of base pairing, leading to the double helix
understand the process of DNA replication
understand the process of RNA transcription of DNA information
understand the process of RNA translation of information into peptide synthesis
identify the expected state of ionization of amino acids or peptides based on a given pH and their pKa values
name and give abbreviations for simple peptides
indicate the steps necessary for peptide sequencing
indicate the steps necessary for a peptide synthesis
use the codon tables to identify amino acid codons and anticodons
identify features that contribute to the various levels of protein structure
determine the amino acid sequence of a polypeptide based on partial hydrolysis and other results
follow the processes of replication, transcription, and translation, identifying and correlating base pairs with the resultant amino acids