Chemistry 3510 - Biochemistry I
Exam 4 Information
Prof. Bellizzi
Fall 2013
Exam 4 will cover Chapters 10-11 and Problem Sets/Quizzes 11-13.
The exam will have approximately 25 questions, split between drawing structures or
mechanisms, short answer, and m
Lecture 7:
Introduction to Peptides and
Proteins
1_c07_163-220.qxd
2/22/10
9:10 PM
Page 165
CHEM 3510 Biochemistry I
Dr. John Bellizzi
Fall 2016
S
A chain
Gly
Ile
Phe
Val
Ala
Ser
Val Cys Ser
10
Leu
Tyr Gln
15
Leu Glu
Gln
His Leu
5
Cys
Asn
Tyr Cys
S
S
Asn
Kinetic Analysis of Enzyme-Catalyzed
Reactions
to hemoglobin
at higher altitudes by stabilizing the T-state and shifting the sigmoidal binding curve to lower
binding).
Michaelis Menten Kinetics
Michaelis Menten Kinetics
existing in a high O2 affinity stat
Lecture 11:
Fibrous Proteins
Protein Sequencing
CHEM 3510 Biochemistry I
Dr. John Bellizzi
Fall 2016
Lecture 11 Fall 2016
Biochemistry I Prof. Bellizzi
2
Fibrous Proteins
Fibrous proteins:
Elongated molecules of relatively simple repeating sequence and
_ _
Last Name
First Name
Biochemistry I
Mid-Term Exam 2
Dr. Bellizzi
October 21, 2016
Instructions:
1. Do not open the exam until instructed to do so. Write your name (last name, then first name) at the top of this page
right now, then write your name on
Lipids as Signals, Cofactors, and Pigments
Storage Lipids - triacylglycerides
Structural Lipids glycerol, sphingosine,
sterol based
Signal Lipids hormones, cofactors
(vitamins), and conjugated pigments
External signals activate phospholipase C
Phosphatidy
five general types of membrane lipids
glycerophospholipids, in which the hydrophobic regions are
composed of two fatty acids joined to glycerol;
galactolipids and sulfolipids, which also contain two fatty
acids esterified to glycerol, but lack the charact
David L. Nelson and Michael M. Cox
LEHNINGER
PRINCIPLES OF BIOCHEMISTRY
Fifth Edition
CHAPTER 10
Lipids
2008 W. H. Freeman and Company
Lipids
Fats and oils = long term energy storage
Phospholipids and sterols = major component of biological
membranes
Als
H1N1
What viruses cause flu?
There are three types of influenza viruses: A, B and C. Influenza A and B viruses
cause seasonal epidemics of disease almost every winter in the United States.
Influenza type C infections cause a mild respiratory illness and a
Foreign genes have variable levels of expression and need to
be purified away from host proteins
Affinity tags can be fused to the foreign protein by joining the
two gene sequences
The most common is polyhistidine which has high affinity for
metals
Fusion
Lecture 15
O2 Binding Proteins Myoglobin
and Hemoglobin
CHEM 3510 Biochemistry I
Dr. John Bellizzi
Fall 2016
Lecture 15 Fall 2016
O2 Binding Proteins
2
Oxidative metabolism requires constant supply of O2
Need storage/transport system circulation of O2
Mus
Lecture 5
Bioenergetics
Introduction to Enzyme Catalysis
CHEM 3510 Biochemistry I
Dr. John Bellizzi
31 August 2016
Lecture 5 - 2016
2
Thermodynamics
Tells us whether a given reaction or process can occur
spontaneously (thermodynamically favorable), or whe
Lecture 12
Protein Folding and Denaturation
CHEM 3510 Biochemistry I
Dr. John Bellizzi
Fall 2016
Lecture 12 Fall 2016
Biochemistry I Prof. Bellizzi
2
Protein folding and denaturation
Native state the folded
tertiary/quaternary
conformation of a protein
Final Exam Practice Problems Solutions
1. Amino Acids and Proteins
A. Fill in the appropriate word or phrase in the blank provided.
Secondary structure refers to a number of consecutive amino acids with the same / angles.
Quaternary structure refers to th
Chemistry 3510 - Biochemistry I
Practice for Exam 3
Prof. Bellizzi
Fall 2016
Exam 3 (Monday November 21) will cover carbohydrates, nucleotides and nucleic acids, and lipids
(Chapters 7-10) and Lectures 23-31.
1. Draw a Fischer projection of the linear (op
Lecture 4
Water: The Solvent of Life
CHEM 3510 Biochemistry I
Dr. John Bellizzi
29 August 2016
Lecture 4 8/31/15
Biochemistry I Prof. Bellizzi
Water
Biochemistry takes place in aqueous solution.
Cells are 70-90% H2O.
Important Properties of water:
Dip
Lecture 6
Amino Acids
CHEM 3510 Biochemistry I
Dr. John Bellizzi
Fall 2016
Lecture 6 - 2016
2
Proteins
Linear macromolecular polymers formed from amino acids.
Peptide bond amide linkages connecting amino acid residues.
A polypeptide chain has a backbon
Lecture 14
Protein-Ligand Interactions
CHEM 3510 Biochemistry I
Dr. John Bellizzi
Fall 2016
Lecture 14 Fall 2016
Biochemistry I Prof. Bellizzi
2
Protein-Ligand Interactions
Most protein function involves the reversible, highly specific, and generally nonc
Lecture 10:
Tertiary and Quaternary Structure of
Proteins
CHEM 3510 Biochemistry I
Dr. John Bellizzi
Fall 2016
Lecture 10 Fall 2016
Biochemistry I Prof. Bellizzi
2
Tertiary Structure
1 structure
2 structure
3 structure
relative arrangement of 2 structu
Lecture 8:
Primary and Secondary Structure of
Proteins
CHEM 3510 Biochemistry I
Dr. John Bellizzi
Fall 2016
Lecture 8 Fall 2016
Biochemistry I Prof. Bellizzi
2
Levels of Protein Structure
Primary covalent linkage of polypeptide chain (sequence of amino ac
Lecture 14
Protein-Ligand Interactions
CHEM 3510 Biochemistry I
Dr. John Bellizzi
Fall 2016
Lecture 14 Fall 2016
Biochemistry I Prof. Bellizzi
2
Protein-Ligand Interactions
Most protein function involves the reversible, highly specific, and generally nonc
Lecture 13
Protein Purification and Analysis
CHEM 3510 Biochemistry I
Dr. John Bellizzi
Fall 2016
Lecture 13 Fall 2016
Biochemistry I Prof. Bellizzi
2
Gel Electrophoresis
Gel (crosslinked polymer mesh)
Agarose or polyacrylamide
Molecular sieving smaller
David L. Nelson and Michael M. Cox
LEHNINGER
PRINCIPLES OF BIOCHEMISTRY
Fifth Edition
CHAPTER 9
DNA-Based Information Technologies
2008 W. H. Freeman and Company
Paul Berg was awarded the 1980 Nobel in Chemistry "for his
fundamental studies of the bioche
Purified DNA forms a viscous slurry
that can be drawn in fibers
The viscosity of DNA decreases when
temperature is increased
DNA duplexes denature (melt) near the
boiling temperature of water
As temperature is lowered, the DNA
duplex anneals in a biphasic
Proteins are held together by weak interactions
Loss of tertiary structure is denaturation
Heat, extreme pH, organic solvents, detergents can be used
to denature protein
Salt increases hydrophobic affect and stabilize proteins
Chaotropes destabilize terti
Test #1 Friday 17 Sept 2010
100 pts
Chapters 1 4
Circular dichroism - difference in absorbance ( ) of right
versus left circularly polarized light
Difference spectra can be used to identify secondary
structure
Kendrew solved the structure of myoglobin
Per
Nomenclature
Class proteins with similar function
Family proteins with similar fold
(we assume fold is similar if sequences are related)
Homologues proteins related by sequence (identity and
similarity)
Ortholog members of a protein family within differen
Gels are prepared using agarose, a polymer extract from
seaweed, or acrylamide, which polymerizes through a free
radical reaction
Soft gels which compress under pressure use electric field
instead
Separation is then based on size and charge
The detergent
Nomenclature
Protein linear polymer of condensed amino acids
Condensation the removal of water to form a bond
Hydrolysis the addition of water to break a bond
Residue an amino acid incorporated into a protein
Peptide bond the amide bond formed between ami
David L. Nelson and Michael M. Cox
LEHNINGER
PRINCIPLES OF BIOCHEMISTRY
Fifth Edition
CHAPTER 3
Amino Acids, Peptides, and Proteins
2008 W. H. Freeman and Company
Genes encode proteins
Amino acids comprise proteins
All life utilize the same 20 amino acid
