BIOMG3350_Syllabus_012011 - BioMG/BioG3350: Principles of...

Info iconThis preview shows page 1. Sign up to view the full content.

View Full Document Right Arrow Icon
This is the end of the preview. Sign up to access the rest of the document.

Unformatted text preview: BioMG/BioG3350: Principles of Biochemistry Spring 2011, 4 credits M,T,W,Th: 1:25-2:15 pm Faculty: Chris Fromme jcf14@cornell.edu 457 Weill Hall Jim Blankenship jeb14@cornell.edu 219 Stimson Hall 231 Warren Hall Teaching assistant: Fosheng Hsu fh93@cornell.edu 355 Weill Hall Office hours: Tues 3:00-4:00 pm Wed 4:45-5:45 pm Office hours: Office hours: Mon + Fri Mon + Fri 2:30-3:30 pm (1/24-3/18) 2:30-3:30 pm (3/28-5/6) What will I learn by taking this course? How life “works” at the molecular level! (DNA, RNA, Proteins, Carbohydrates, Lipids, Metabolism, Replication, Repair, Transcription, Translation, Regulation, Technology, Genomics!) How will I learn all of those things in one semester?!? Pay attention in class, do the reading and assignments, and please ask questions! Textbook: (both books are on 2-hour reserve in Mann Library) Required: “Lehninger: Principles of Biochemistry”, Nelson & Cox, 5th edition. Optional: “The Absolute, Ultimate Guide to Lehninger: Study Guide and Solutions Manual”, Osgood & Ocorr, 5th edition. Exam and Quiz Schedule: IF YOU HAVE A CONFLICT, YOU MUST NOTIFY US TWO WEEKS IN ADVANCE SO WE CAN SCHEDULE A MAKE-UP EXAM. NO MAKE-UP QUIZZES. Exams: Preliminary Exam: Midterm Exam: Final Exam (not cumulative): Quizzes 2/17, In-class 3/17, Evening 5/18, TBA see below 20% of final grade 35% of final grade 35% of final grade 10% of final grade Quizzes (in-class, ~15 minutes): 2/3, 3/3, 4/7, 4/21 Quiz score average of best three quizzes is 10% of final grade. NO MAKE-UP QUIZZES. Assigned Problems: Practice Problems listed in the lecture outline below are strongly encouraged. Quiz and Exam questions will sometimes resemble these problems! You will not turn these in for a grade (the solutions are in the back of the textbook). Lecture outline and assignments: N&C= Nelson & Cox textbook; SG = Study Guide text #
 Date
 Topic
 1
 2
 3
 4
 5
 6
 7
 8
 9
 1/24
 Introduction
 1/25
 Amino
Acids
 Reading
 Chapters
1
+
2
 71‐82
 Practice
Problems
 
 N&C:
Ch.
3:
#3a,
6a
 SG:
p.32:
#3,
p.34:
#1
 N&C:
Ch.
3:
#7
 SG:
p.33:
#8,
12
 N&C:
Ch.
4:
#1
 
 N&C:
Ch.4:
#4,
11
 SG:
p.48:
#2
 N&C:
Ch.
3
#10;
Ch.
4:
#8
 SG:
p.48:
#3
 N&C:
Ch.4:
#14
 SG:
p.48:
#10
 
 N&C:
Ch.5:
#1,
3a,
3b,
4,
6
 SG:
p.63
#4
 N&C:
Ch.
6:
#1,
3,
4,
7
 SG:
p.
80:
#13
 N&C:
p.
199
#6‐1;
Ch.
6:
#9,
10,
 11,
13,
15
 SG:
p.
79:
#10,
12;
p.
80:
#16‐20;
 p.81:
#1

 N&C:
Ch.
6:
#18,19
 SG:
p.
79:
#9,
11

 SG:
p.
80:
#15
 SG:
p.
79:
#5,6;
p.
80:
#14;
 
 
 N&C:
Ch.7:
#1,
7
 SG:
p.93:
#4;
p.94:
#9;
p.96:
#8
 N&C:
Ch.10:
#7a,
7b,
7e,
9,
15;

 Ch.
11:
#4,
15
 SG:
p.129:
#3,
4;
p.143:
#1‐6;
 p.146:
#1
 N&C:
Ch.
13:
#2‐6,
9,
10,
11
 SG:
p.
179:
#2‐4;
p.180:
#9,
11,
12
 N&C:
Ch.
13:
#23,
27,
28
 SG:
p.181:
#13,
#2
 1/26
 Peptides
and
Intro
to
 82‐94,
102‐106
 Proteins
 1/27
 How
are
protein
structures
 113‐115,
132‐134
 determined?
 1/31
 Protein
Secondary
Structure
 115‐121
 2/1
 2/2
 2/3
 2/7
 Protein
Tertiary
and
 Quaternary
Structure
 Protein
Folding
 1.
QUIZ
 2.
Protein
Function:
Binding
 Myoglobin
and
Hemoglobin
 Protein
Function:
Enzymes
 Kinetic
analysis
of
catalysis
 121‐131,135‐140
 140‐148
 
 153‐169
 183‐194
 194‐200
 10
 2/8
 11
 2/9
 12
 2/10
 Enzyme
inhibition
 13
 14
 15
 
 16
 2/14
 2/15
 2/16
 2/17
 2/21
 Enzyme
mechanism
 Enzyme
regulation
 REVIEW
 IN­CLASS
PRELIM
EXAM
 Carbohydrates
 200‐205
 205‐211
 220‐228
 
 On
Lectures
1­14
 235‐247
 343‐357,
371‐380
 17
 2/22
 Lipids
and
membranes
 18
 2/23
 Bioenergetics
 19
 2/24
 Redox
reactions
and
 Glycolysis
 485‐511
 512‐521,
527‐531
 20
 2/28
 Glycolysis
 21
 3/1
 22
 3/2
 23
 3/3
 24
 3/7
 25
 3/8
 Fermentation
and
 Gluconeogenesis
 Citric
Acid
Cycle
 1.
QUIZ
 2.
Fat
Catabolism
 Oxidative
phosphorylation
 531‐539,
542‐545
 546‐558,
582‐583,
 585‐587
 615‐638
 647‐656
 707‐732
 742‐749,
752‐761
 773‐783,
851‐857
 805‐814,
836‐840
 419‐420,
422‐433,
 569‐577
 540‐541,
 HANDOUT
 
 
 On
Lectures
1­29,
 with
emphasis
on
 Lectures
16­29
 Photosynthetic
 phosphorylation
 26
 3/9
 Carbon
assimilation
and
 Nitrogen
fixation
 27
 3/10
 Lipid
Biosynthesis
 28
 3/14
 Global
metabolic
regulation
 mechanisms
 29
 3/15
 Metabolism
and
Disease
 30
 3/16
 REVIEW
 
 3/17
 NO
CLASS
 
 3/17
 Mid-term Exam: 7:30-9:00 pm in Warren B45
 (Spring Break) 31
 3/28
 DNA
structure
 N&C:
Ch.
14:
#12‐14

 SG:
p.191:
#11‐15
 N&C:
Ch.14:
#4,
7,
8,
11,
21,
22,
 Ch.
15:

#1
 SG:
p.191:
#18;
p.192:
#20,
#2
 N&C:
Ch.16:
#3,
4,
10a,
10b,
28,
30
 SG:
p.214:
#15;
p.216:
#4a,
4c,
4d
 N&C:
Ch.
17:
#3,
10
 
 N&C:
Ch.
19:
#1‐3,
13,
23
 SG:
p.
249:
#2,
5

 N&C:
Ch.
19:
#31,
36
 SG:
p.250:
#7,
8
 N&C:
Ch.
22:
#1
 SG:
p.260:
#2,3;
p.
284:
#1,3
 N&C:
Ch.
21:
#2,
6

 SG:
p.272:
#3,
5
 SG:
p.
164:
#2,
3;
p.
166:
#2e
 
 
 
 
 945‐6,
271‐81,
 287‐92
 
 292‐4,
947‐54
 954‐62
 962‐71
 975‐91
 32
 3/29
 “
 33
 3/30
 Genes
&
Chromosomes
 34
 3/31
 DNA
topology
 35
 4/4
 36
 4/5
 37
 4/6
 38
 4/7
 Chromatin
structure
 DNA
replication
 “
 
 1.
QUIZ
 991‐3,
1053‐6
 2.
replication,
con’t.

























 “
 39
 4/11
 DNA
repair
 289‐92,
993‐4,
 996‐7
 N&C
p.
280,
#8‐1,
 ch.
8,
#2,
10;
 SG
pp.
107‐11,
#1‐2,

 4‐10,
13‐14
 
 N&C
ch.
8,
#11‐12,
 ch.
9,
#9,ch.24,
#4
 N&C
ch.
24,
#5,
8,
11;
 SG
p.
306:
#1‐3,
5
 SG
p.
306,
#4
 N&C
ch.
25,
#1‐2,
5,
7‐9;
 SG
pp.
317,
#1‐2
 
 
 N&C
ch.
8,
#6‐7
 40
 4/12
 RNA
&
transcription
 41
 42
 43
 44
 45
 4/13
 “
 4/14
 “
 4/18
 RNA
processing
 4/19
 “
 4/20
 Transcription
regulation
 
/
prokaryotes
 46
 4/21
 1.
QUIZ
 2.
Transcription
regulation
 
/
eukaryotes
 47
 4/25
 The
RNA
world
 48
 4/26
 The
genetic
code
 49
 4/27
 Translation
 50
 4/28
 51
 5/2
 52
 5/3
 53
 5/4
 54
 5/5
 
 TBA
 
 
 “
 “
 Protein
targeting
&
 degradation
 DNA­based
technology
 271‐3,
283‐7,
 1021‐33
 
 
 1033‐42
 
 1115‐27
 1136‐41
 29‐36,

 1056‐61
 1065‐74
 1075‐1100
 
 1045‐6,

 1132‐4
 1100‐9
 292‐6,
303‐38
 
 
 On
Lectures
31­ 54
 N&C,
ch.
26,
#2‐3,6;
 SG
pp.
329‐30,
#1,
3‐6
 
 
 SG
p.
330,
#7
 
 N&C
ch.
28,

#2,
5;
 SG
p.
355,
#6‐8
 SG
pp.
354‐5,
#4‐5,
9
 
 N&C
ch.
27,
#1‐4,
6,
8‐10
 N&C
ch.
27,

#11‐12
 SG
p.
318,
#3,
p.
341,
#4‐8,

 p.
354,
#1,
3
 
 
 N&C
ch.
27,
#14
 N&C
ch.
8,
#15,
ch.
9,
#1‐5,
8,
11‐13,
 ch.
28,
#10
 
 
 
 “
 REVIEW
during
reading
 period
 5/18
 Final
Exam
 
 Learning Objectives After taking this class, students should be able to: 1. Discuss and/or describe in writing: The structure and function of biologically important macromolecules General catalytic and regulatory mechanisms of enzymes The energetics and organization of metabolic pathways The mechanisms underlying gene expression (transcription), protein synthesis (translation), DNA replication, DNA repair, and DNA recombination 2. Think analytically and use quantitative reasoning to solve biochemical problems. 3. Formulate conclusions based on the analysis of biochemical experimental results. Course Web Site: General course information, supplementary information, and lecture handouts will be posted on the course web site. To access the web site you will need to sign up for the course via the “Blackboard Learning System,” which can be accessed at: http://blackboard.cornell.edu/ Disabilities: We will make appropriate accommodations for students with disabilities. Students with either an ongoing or short-term disability are encouraged to contact Student Disability Services (SDS) for a confidential discussion of their needs, and for registration with SDS to verify eligibility for academic accommodations. Except for unusual circumstances, please make such requests for accommodation to us during the first three weeks of the semester so that arrangements can be made. SDS is located in 420 CCC building; phone number is 254-4545. Mental Health: If you are experiencing unusual personal or academic stress at any time during the semester or need to talk with someone about a personal problem or situation, seek support as soon as possible. We are available to talk with you about stresses related to your work in this class. Additionally, we can assist in reaching out to any one of a wide range of campus resources, including: • Your college’s Academic Advising or Student Services Office • Cornell Learning Strategies Center at 255-6310, http://lsc.sas.cornell.edu • Gannett Health Services at 255-5155, www.gannett.cornell.edu • Let’s Talk Drop–In Consultation and Support www.gannett.cornell.edu/Let’sTalk • Peer Support provided by Empathy Assistance and Referral Service at 255-EARS Academic Integrity Each student in this course is expected to abide by the Cornell University Code of Academic Integrity (http://cuinfo.cornell.edu/Academic/AIC.html). Any work submitted by a student in this course for academic credit will be the student's own work. ...
View Full Document

Ask a homework question - tutors are online