Amino Acids Generalchemhaven.org/che102/EP/Ch29_4x6_Print.pdf · • Complete (animal) vs....
Transcript of Amino Acids Generalchemhaven.org/che102/EP/Ch29_4x6_Print.pdf · • Complete (animal) vs....
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Amino AcidsGeneral
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Amino Acids:• Building blocks for peptides, proteins• Some individually important (or converted to important molecules)
• Gly, Glu, Tyr neurotransmitters• Tyr parent/precursor for epinephrine (adrenaline)• His stomach secretes HCl, symptoms for inflammation, colds.
• Essential (10)• needed for normal health• not synthesized by the body • must be supplied by diet
• Complete (animal) vs. Incomplete (vegetable) protein
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Amino AcidsStructure
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Amino Acid Structure:• Amide, CA, R‐group (variable)• D/L Isomers
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Amino AcidsSide Chains
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AA – Side Chains:• Side chains determine the functionality of the AA b/c the –COOH and –NH2
groups react to form the backbone• 3 letter abbreviations (given on cheat sheet)
Classification Functional Group Property
Nonpolar ‐R (aliphatic or aromatic)
Hydrophobic
Polar ‐COOH, ‐NH2, ‐OH Hydrophilic
Acidic ‐COOH (extra) Lose H2 anion Salt Bridges
Basic ‐NH2 (extra) Gain H2 cation Salt Bridges
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Zwitterion
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Zwitterion: dipolar form of AA, found at biological pH’s (internal acid/base Rxn)
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Amphoteric
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Amphoteric: molecules with properties of both acid and base
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Formation ofPolypeptides
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Formation Reaction:• Dehydration reaction• CA + Amine Amide• Amide structure/Peptide bond/Peptide linkage
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Amide/PeptideBonds
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Polypeptides
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Polypeptides:• Small chains of AA (40‐50 units)• Many ways to connect together (N!)• ~30 biologically relevant ones• Hormones or Nerve transmitters• Small changes structure HUGE changes in functionality
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ProteinStructure
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Proteins – General:• > 50 AA• Linus Pauling – 1954 Nobel Prize α‐helix and β‐pleated sheet• Fredrick Sanger – 1958 Primary structure of beef insulin
Classification Description ExamplesPrimary #, kind, type and sequence of AA
Secondary Regular 3D structure, held together by H‐bonds in backbone
α‐helixβ‐pleated sheet
triple helix
Tertiary Distinct 3D structure due to interactions between R‐groups
H‐bondsIonic bonds (Salt Bridges)
Disulfide bondsHydrophobicHydrophilic
Quaternary Complex proteinsMultiple units
Non‐protein partsMetal ions
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Primary Structure
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Primary Structure:• #, kind, type, and sequence of AA• Fredrick Sanger (1958 Nobel Prize) Beef Insulin• Several years of work to sequence 51 AA• Hydrolyzed proteins into smaller fragments to analyze
• Edman Degradation – split AA at N‐Terminal End
Gly‐Glu‐Arg‐Gly‐Phe‐Phe‐Tyr‐Thr‐Pro‐LysGly‐Phe‐Phe‐Tyr‐Thr‐Pro‐Lys
Gly‐Glu‐Arg‐Gly‐Phe‐Phe‐Fragment 1:
Combined:Fragment 2:
Overlap
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Secondary Structure
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Secondary Structure:• Determined by H‐bonds between AA‐backbone
• α‐helix AA 4 residues apart, R‐groups towards outside
• β‐pleated sheet AA far apart, R‐groups face outwards
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Tertiary Structure
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Tertiary Structure:• Determined by interactions between R‐groups• H‐bonds: ‐COOH and –OH
• Ionic/Salt Bridges
• Disulfide Bonds
• Hydrophobic (form core of protein)
• Hydrophilic (face outwards to interact with water)
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Quaternary Structure
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Quaternary Structure:• Multiple protein units• Non‐protein parts• Metal ions
• Ex: Hemoglobin• 4 subunits• Fe atoms
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Protein StructureSummary
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α‐Helix
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α‐helix Structure:• Secondary• Determined by H‐bonds between AA‐backbone• α‐helix AA 4 residues apart, R‐groups towards
outside
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β‐Pleated Sheet
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β‐pleated sheet structure:• Secondary• Determined by H‐bonds between AA‐
backbone• β‐pleated sheet AA far apart, R‐
groups face outwards
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H‐bonds
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Secondary H‐bonds:• Between the C=O and NH of backbone• Responsible for secondary structure
Tertiary H‐bonds:• Between the C=O and ‐NH or ‐OH of R‐groups• Responsible for tertiary structure
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Salt Bridges
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Ionic Bonds/Salt Bridges:• Tertiary Structure• Between –COO‐ and –NH3+ groups
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Disulfide Bonds
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Disulfide bonds:• Tertiary Structure• Between ‐SH and –SH groups• Mainly between Cys‐Cys
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HydrophobicInteractions
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Hydrophobic Interactions:• Tertiary Structure• Between –R groups (Alkane and
Aromatic)• Interior of proteins to avoid water
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HydrophilicInteractions
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Hydrophilic Interactions:• Tertiary Structure• Exterior of proteins to interact with water• Polar groups (OH)• Acidic groups (COOH)• Basic groups (NH2)
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Identify 2°/3°Structure
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Protein Functions
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Protein Functions:• Structural Support – skin, connective tissue• Storage – Fe in Liver• Transport – O2 in Hemoglobin• Defense – antibodies, venom• Motion/Movement – muscles• Regulation – blood/glucose/insulin• Catalysis – Enzymes (Ch. 30!)
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Denaturation
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Denaturation: Loss of 3D conformation in a protein• Disruption of 2°/3°/4° interactions• Does NOT break 1° structure (hydrolysis)• Loss of biological activity• Causes of Denaturation
Cause Example1. Heat Cooking2. Acids/Base (pH) Lactic Acid3. Organic Molecules Ethanol/Isopropanol4. Heavy Metals Pb, Hg 5. Agitation Stirring6. UV Light7. Enzymes Digestion8. Salts Water purification
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XanthoproteicTest
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Xanthoproteic Test:• Detects Benzene rings• Yellow color• Phe, Try, Tyr
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Biuret Test
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Biuret Test:• Detects tri‐peptides (must have at least 2 peptide bonds)• Cu2SO4• Violet color
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NinhydrinTest
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Ninhydrin Test:• General test for AA• All AA blue• Pro, hydroxyproline yellow• Very sensitive 1 μg (10‐6)
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Chromatography
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Chromatography: separation technique for AA• Difference in distribution between two
phases○ Solubility○ Charge
• TLC (thin‐layer) – solid/liquid phase ○ Solvent Front (rate solvent moves)○ Differences in solubility cause AA to
travel at different rates in the solvent• Column chromatography (variation of above)
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Electrophoresis
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Electrophoresis: separation technique for AA• Charged particles separate in electric field (zwitterions)• Separation based on
○ Size – friction (sieve)○ Charge – electric field
• Types○ SDS – masks charge/separate by mass/size○ Isoelectric Focusing – AA separated by charge○ 2D – separate on both.
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Fredrick Sanger
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Fredrick Sanger:• Solved structure of beef insulin (1955)• Nobel prize 1958• 51 AA in two chains held together by disulfide bonds• DFNB + N‐terminal end + hydrolysis to solve structure• “Paper shredder”