JOHNS HOPKINS UNIVERSITY Department of Biology

JOHNS HOPKINS UNIVERSITY Department of Biology Instructor Name: Course Title: Biochemistry Laboratory Robert D. Horner, Ph.D. Instructor Contact Information Course Number: 020.315.21 179 UTL, Department of Biology Distribution: N 410-516-8067 or -7281 [email protected] Instructor Office Hours/Location: Tues. & Thurs. 1-2 Credits: 2 p.m., 179 UTL . Lab Lecture: M, W, F noon -1:00 p.m. in Mudd 100 Dates: June 27 – July 29, 2015 Lab Section: M, W, F 1:30 -4:30 p.m. in 174 UTL .

COURSE DESCRIPTION This course will reinforce the topics presented in Biochemistry 020.305 through laboratory exercises which use quantitative measurement to study cellular components. Topics include pH, proteins, carbohydrates, lipids, nucleic acids, and enzymes. COURSE LEARNING OBJECTIVES Students should obtain a good working knowledge and basic understanding of the following areas: 1 Buffers, pH and weak acids in proteins and nucleic acids 2 Use of spectrophotometry to measure biomolecules and biochemical processes 2 Enzyme catalysis, purification, quantitation and electrophoretic analysis 3 Measurement of binding constants and free energy of protein unfolding 4 Chemical characterization of carbohydrates and lipids 5 DNA isolation and restriction enzyme analysis 6 Polymerase chain reaction

REQUIRED MATERIALS TEXTBOOKS: 1. Manual online at course website 2. Berg, J.M., Tymoczko, J.L., & Stryer, L., Biochemistry, 7th Ed. SUPPLIES: Experimental Research Notebook with carbonless duplicating pages. COURSE WEBSITE: on Blackboard https://blackboard.jhu.edu/webapps/portal/frameset.jsp

EVALUATION AND GRADING Grades will be based on the following assessments: ASSESSMENT TYPE PERCENT OF FINAL GRADE Several class assessments during lecture 2% Twelve lab reports 11% Two midterm exams 37% Twelve quizzes, one at the beginning of each lab 22% Lab practical examination 28%

ATTENDANCE POLICY Students are required to attend all lab and lecture sessions.

JOHNS HOPKINS POLICIES AND SUPPORT SERVICES This course is governed by the policies set forth in The Johns Hopkins University Undergraduate Student Handbook, which contains information on a wide variety of topics, such as support services, and policies relating to student rights and responsibilities. This course is governed by the policies set forth in this document. Some JHU student support services you may find useful include: SUPPORT SERVICE LOCATION PHONE NUMBER / WEBSITE Library E-Reserves http://www.library.jhu.edu/services/forms/reserves.html [email protected] The Learning Den Homewood Campus in Gilman Hall and nearby [email protected] provides tutoring for all buildings Ms. Anne Benner registered students in Arts and Garland Hall, Suite 300 Sciences and Engineering. No 410-516-8216 fee and no limit to the number of sessions a student may attend. Summer & Intersession 410-516-4548 3505 N. Charles Street, Suite 101 Programs http://www.jhu.edu/intersession

CLASSROOM ACCOMODATIONS FOR STUDENTS WITH DISABILITIES If you are a student with a documented disability who requires an academic adjustment, auxiliary aid or other similar accommodations, please contact The Office of Student Disability Services at [email protected], call 410-516-4720 or visit 385 Garland Hall.

STATEMENT OF DIVERSITY AND INCLUSION

Johns Hopkins University is a community committed to sharing values of diversity and inclusion in order to achieve and sustain excellence. We believe excellence is best promoted by being a diverse group of students, faculty and staff who are committed to creating a climate of mutual respect that is supportive of one another’s success. Through its curricula and clinical experiences, we purposefully support the University’s goal of diversity, and in particular, work toward an ultimate outcome of best serving the needs of students. Faculty and candidates are expected to demonstrate an understanding of diversity as it relates to planning, instruction, management, and assessment.

A WORD ON ETHICS

Ethics: Because the strength of the university depends on academic and personal integrity, the Course Instructor of this course expects students to be follow the code of ethics established by the undergraduate students of the Johns Hopkins University in 1975. In this course, you must be honest and truthful. Ethical violations include cheating on exams, plagiarism, reuse of assignments, improper use of the Internet and electronic devices, unauthorized collaboration, alteration of graded assignments, forgery and falsification, lying, facilitating academic dishonesty, and unfair competition. Ignorance of these rules is not an excuse. The university will punish cheaters with failure on an assignment, failure in a course, permanent transcript notation, suspension, and/or expulsion. Offenses may be reported to medical, law or other professional or graduate schools when a cheater applies.

In addition, the specific ethics guidelines for this course are:

Quizzes and the final practical exam are closed book.

The only calculators allowed during test periods are TI-30 series calculators. Calculators may not be shared between students during quizzes or the practical exam.

Lab reports must be the product of a student=s own effort.

Report any violations you witness to the instructor. You may consult the associate dean of students and/or the chairman of the Ethics Board beforehand. See the guide on AAcademic Ethics for Undergraduates@ and the Ethics Board web site (http://ethics.jhu.edu) for more information. HELPFUL ADVICE

For suggestions on lecture note-taking, please Google “Cornell note-taking”.

For a productive text reading method, please Google “SQ3R”.

This course covers in four weeks what is normally covered in the 13 weeks of a semester. If you do not have the prerequisites of this course, you will be at risk for failure.

A course website has been constructed on Blackboard. Abbreviated lectures will be posted. If you are registered in the course, your JHED ID and password will give you access. The URL is https://blackboard.jhu.edu/webapps/portal/frameset.jsp

The instructor and teaching assistant will monitor the discussion board, but since the course meets three times a week, questions are best asked in lecture and lab so everyone will hear and benefit.

COURSE SCHEDULE

Day Lab Lecture

6/27 1. pH, Buffers, Amino Acids Intro., pH & Spectrophotometry

6/29 2. Spectrophotometry Protein Folding

7/1 3. Protein Folding Protein-Ligand Binding

7/4 4th of July Holiday, no lab no lecture

7/6 4. Protein-Ligand Binding Enz. Catalysis

7/8 5. Enzyme Catalysis Carbohyd. Chem.

7/11 6. Carbohydrate Chemistry Lipids & Protein Purif.

7/13 7. Lipids Midterm Exam I (labs 1-5) 7/15 8. Protein Purification Lysozyme Enzyme Mech

7/18 9. Lysozyme Enzyme Mechanism Prot. Electrophor.

7/20 10. Protein Electrophoresis DNA Isolation & PCR & Restriction Enz.

7/22 11. DNA Isolation & PCR Midterm exam II (labs 6-9)

7/25 12. Restriction Enzymes Review

7/27 13. Practical Exam no lecture