1. 5P1-1 Chapter Outline Amino Acids Amino acid classesStereoisomers Bioactive AATitration of AA Modified AAAA reactions Peptides Proteins Protein structure Fibrous proteins Globular proteins

2. 5P1-2 5.1 Amino Acid: Definition An alpha amino acid is a carboxylic acid with an amino group on the carbon alpha to the carboxylic acid. The alpha carbon also has an R group side chain except for glycine which has two Hs. Generic amino acid at physiological pH: zwitterion form  C C

3. 5P1-3 Definition, cont. If the R group is not H, the AA can exist in two enantiomeric forms (nonsuperimposable mirror image) forms.) Mirror plane  carbon

4. 5P1-4 Amino Acids General form: 1. an amino acid (AA); 2. two AA linked to form the peptide bond. L-form

5. 5P1-5 Amino Acids-2 Only the L form of amino acids is commonly found in proteins. Depending on the nature of the R group, AA are classified into four groups. nonpolar polar acidic basic

6. 5P1-6 AA with nonpolar side chains-1

7. 5P1-7 AA with nonpolar side chains-2

8. 5P1-8 AA with polar side chains-1

9. 5P1-9 AA with polar side chains-2

10. 5P1-10 AA: acidic and basic

11. 5P1-11 Amino Acid Titration At physiological pH, the carboxyl group of the AA is negatively charged and the amino group is positively charged. Amino acids without charged side chains are zwitterions and have no net charge. H 3 + N-CHR-COO -. A titration curve shows how the amine and carboxyl groups react with hydrogen ion.

12. 5P1-12 Amino Acid Titration-2 At low pH a nonacidic/nonbasic amino acid is protonated and has the structure below. H 3 N + CHRCOOH The charge behavior of acidic and basic AAs is more complex.

13. 5P1-13 Titration of Alanine 1 A A=B pK 1 =2.3 B, pI=pH=6.0 B=C pK 2 =9.73 C

14. 5P1-14 Isoelectric point The isoelectric point (pI) for an AA occurs when there is no net charge. For a neutral AA, the pI is calculated using the equation pK 1 + pK 2 /2 Eg.: alanine: 2.34 + 9.7 / 2 = 6.0 For acidic or basic AAs, the pI is the average of the two pK a values bracketing the isoelectric structure.

15. 5P1-15 Isoelectric point-2 In general the pI is the average of the two pK a ’s bracketing the isoelectric structure. Eg.: glutamic acid, pI = 3.2 pK 1 =2.2 pK 2 =4.3 pK 3 =9.9

16. 5P1-16 5.2 Peptides Peptide: a polymer of about 2-100 AAs linked by the peptide(amide) bond. As the amino group and the carboxyl group link, water is lost.

17. 5P1-17 Peptides-2 A peptide is written with the N-terminal end to the left and the C-terminal end to the right. H 2 N-Tyr-Ala-Cys-Gly-COOH Name = Tyrosylalanylcysteinylglycine The peptide bond is rigid and planar due to the resonance contribution shown right.

18. 5P1-18 Peptides-3 The peptide bond angles force specific conformations of proteins and, on extended chains, successive R groups are on opposite sides.

19. 5P1-19 Physiologically Interesting Peptides  carbon Common name: carnosine found in muscle tissue

20. 5P1-20 Physiologically Interesting Peptides Glutathione: the reduced form reduces oxidizing agents by dimerizing to form the disulfide bond with release of 2 H.

21. 5P1-21 Physiologically Interesting Peptides Tyr-Gly-Gly-Phe-Leu N-terminal AA C-terminal AA Short form description for a peptide. Leucine enkephalin: a natural analgesic found in the brain

22. 5P1-22 Physiologically Interesting Peptides Oxytocin Induces labor and aids in forcing milk from the mammary glands. Vassopressin has a Phe at position 3 instead of Ile and an Arg at position 8 instead of a Leu. Its role is in regulating blood pressure. 3 8