biomolecules i
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Biological MoleculesToday: amino acids, proteins
DNA, RNA
April 14, 2009
Organic Chemistry
Study of carbon containing compounds. Originally encompassed only compounds isolated from biological sources because it was thought that the molecules contained a “life-force”. The definition of organic chemistry now consists of man-made and biological molecules consisting mostly of Carbon and Hydrogen plus Nitrogen, Oxygen, Fluorine, Chlorine, Bromine, Sulfur, and Phosphorus.
So what makes carbon so special?
Here is an organic molecule
Isopropyl alcohol(rubbing alcohol)
Construct a model of isopropyl alcohol
Here is an organic molecule
Isopropyl alcohol(rubbing alcohol)
Carbon skeleton
Functional group
Does your model look like this?
Benzene
Our plastic model looks a little different
As opposed to …
Amino Acids
Standard amino acids
• 20 amino acids make up all proteins.
• Our bodies produce all but eight
• Isoleucine, leucine, lysine, methionine, phenylalanine, threonine, tryptophan, valine – essential amino acids.
Terms to know
Two amino acids joined together is called a dipeptide. Example Ala-Ala
Three amino acids joined together is called a . Example Glu-Cys-Gly
Many many, many amino acids joined together are called .
Terms to know
Two amino acids joined together is called a dipeptide. Example Ala-Ala
Three amino acids joined together is called a tripeptide . Example Glu-Cys-Gly
Many many many amino acids joined together are called protein .
Formation of a peptide bond
An example of an enzyme
Proteins
• Large organic compound (macromolecules)
• Composed of amino acids
• Essential parts of all living organisms– Enzymes that catalyze bioreactions– Play a role in structural or mechanical
functions– Cell signaling
Sucrose is first digested in the stomach by stomach acid. Any remaining sucrose split into glucose and fructose by sucrase in the walls of the intestines.
Protein synthesis
Proteins are assembled from amino acids using the information encoded in genes. (one gene contains the information for one entire enzyme)
Each protein has its own unique amino acid sequence that is specified by the nucleotide sequence of the gene encoding this protein. Each three-nucleotide combination, called a codon, stands for an amino acid.
RNA and DNA
Thymine T
Nitrogenous Bases
Hydrogen Bonding
5’end
3’ end
Nucleotide
Nucleotide in RNA
Sugar (ribose)
phosphate
Nitrogenous base (A)
Protein synthesis
RNA polymerase makes this step happen
Answer the questions on your handout
http://vcell.ndsu.edu/animations/translation/movie.htm1. What is transcription?2. What is the role of RNA polymerase?3. What is the role of Poly A polymerase?4. What do ATP and ADP stand for? What does ATP
supply?5. What is splicing?6. What is the difference between an intron and an exon?7. What is translation?8. What are the three processes within translation?9. What is a codon?10. What’s the difference between mRNA and tRNA?
Structure of proteins
• Primary Structure: The exact sequence of amino acids
• Secondary Structure: The arrangement of amino acids that give local segments of a protein a specific shape. Includes structures alpha-helix, beta pleated sheets and random coils.
• Tertiary Structure: The three dimensional structure of the protein as a whole.
• Quaternary Structure: The three dimensional structure of protein that are assembled from separate protein chains.
Structure of proteins
ProteinsExamples of proteins
α-keratin contains long strands of alpha helix structures. Found in hair, hooves, nails, skin and wool. (fibrous protein)
Silk
These pleated sheet structures make the material resistant to stretching. The small R groups make the chains compact giving the material a smooth feel. The uniform surface makes it a good reflector of light.
Artificial Silk
Polymer continues on in each direction
Another fibrous proteinCollagen most abundant protein in
vertebrates, found in bone, cartilage, tendons, teeth and blood vessels. Contain mostly glycine and proline.
Globular protein- soluble in water
Hemoglobin
Heme
Where do biological molecules come from?
USAToday Posted 8/8/2006
This is an artist’s rendition of the cosmic chemistry cycle. Stars eject matter into space. Diffuse gas clouds condense into stars and planets or comets and meteorites.