Announcements
This course is MCB 110L
Prerequisites:
BMB, Track 1: MCB C100A; MCB 100B; MCB 110 (may be taken concurrently)
BMB, Track 2: MCB C100A; Chem. 135; MCB 110 (may be taken concurrently)
Chem. Bio.:
Chem. C130-130B (or Chem. 120A-120B); Chem. 135;
MCB 110 (may be taken concurrently)
Lab Manual: Purchase ASAP at Copy Central, 48 Shattuck Square
Required Reading for Lecture #1: Short article by Botstein & Fink
Additional Required Reading: Each experimental protocol and the
additional background articles by Sherman in the Lab Manual
Exam Date: FRIDAY, 22 February 2008
Course Policies: READ THE HANDOUT (& remember its content)
Pre-lab Safety Lecture (~15 min):
Ann Fischer
BMB Laboratories Supervisor
For those of you who are already planning your post-Cal life, and arranging for careerrelated interviews (e.g., at medical schools, graduate schools, pharmacy schools,
optometry schools, veterinary schools, pharmaceutical companies, biotech firms, etc.
etc.), please keep in mind that:
(1) Each student enrolled in MCB 110L is responsible for all lecture material and lab
experiments.
(2) If a lecture is missed or a lab is missed, there is no make-up for either.
(3) If an in-class pop quiz is missed, there is no make-up for the missed quiz.
(4) Missing a lecture or a lab also costs points in "lab management", which is 10% of your
final grade.
(5) All experiments are conducted in teams of two; hence, your absence hurts your lab
partner.
(6) The instructor may consider imposing an additional penalty for any unexcused
absence from lecture or lab (such as completion of an additional relevant assignment
outside of class). See: MCB 110L Policy Statement for definition and discussion of
excused absences.
(7) I hope you find the above information helpful in assisting you with scheduling your
commitments this Spring Semester.
GRADING:
Five lab reports at 100 pts. per report =
Flowcharts for 5 exps. at 20 pts. per chart =
Occasional in-class pop quizzes =
General lab management and decorum =
End-of-Section I Examination =
TOTAL
500
100
100
100
200
1,000
MCB 110L: Section I— The Power of Molecular Genetics
Keep your eyes on the prize: The objects of our focus for the next five weeks
Gene Transcription by Eukaryotic
RNA Polymerase II
Initiation of mRNA Translation
by Eukaryotic Ribosomes
Ribbon diagram of the structure of yeast RNA polymerase II at 2.8 Å resolution.
Identity and location of each of the ten subunits is color-coded and interactions
between subunits (thickness of the connecting line represents the amount of
surface area buried in the corresponding subunit interface) are depicted in the
schematic diagram to the right.
See: Cramer P, et al. (2001) Science 292: 1863-1876.
The RPO21 Gene Product (Rpo21)
1
81
161
241
321
401
481
561
641
721
801
881
961
1041
1121
1201
1281
1361
1441
1521
1601
1681
MVGQQYSSAP
FGHIDLAKPV
LVSRGGCGNT
VPPPPVRPSI
PVKSIRARLK
GAKYVIRDSG
DFDGDEMNLH
PTPAIIKPKP
VCAKLFGNIQ
FLNEARDKAG
ENSYLRGLTP
QSLDTIGGSD
RRIIQNAQQT
AFDWVLSNIE
EPGHAADQEQ
AMNDKDLTMG
RVVMMKYDRK
SYVNYRHMAL
FDVMIDEESL
SPFGAYGEAP
TSPSYSPTSP
SYSPTSPSYS
LRTVKEVQFG
FHVGFIAKIK
QPTIRKDGLK
SFNESQRGED
GKEGRIRGNL
DRIDLRYSKR
VPQSEETRAE
LWSGKQILSV
KVVNFWLLHN
RLAEVNLKDL
QEFFFHAMGG
AAFEKRYRVD
FHIDHTKPSD
AQFLRSVVHP
AKLIRSAIEH
QVGERIKQTF
VPSPTGEYVK
LVDVMTTQGG
VKYMPEQKIT
TSPGFGVSSP
SYSPTSPSYS
PTSPNYSPTS
LFSPEEVRAI
KVCECVCMHC
LVGSWKKDRA
DLTFKLADIL
MGKRVDFSAR
AGDIQLQYGW
LSQLCAVPLQ
AIPNGIHLQR
GFSTGIGDTI
NNVKQMVMAG
REGLIDTAVK
LLNTDHTLDP
LTIKDIVLGV
GEMVGVLAAQ
TTLKSVTIAS
KNDLFVIWSE
EPEWVLETDG
LTSVTRHGFN
EIEDGQDGGV
GFSPTSPTYS
PTSPSYSPTS
PSYSPTSPGY
SVAKIRFPET
GKLLLDEHNE
TGDADEPELR
KANISLETLE
TVISGDPNLE
KVERHIMDND
IVSPQSNKPC
FDEGTTLLSP
ADGPTMREIT
SKGSFINIAQ
TAETGYIQRR
SLLESGSEIL
KDLQENLLVL
SIGEPATQMT
EIYYDPDPRS
DNDEKLIIRC
VNLSEVMTVP
RSNTGALMRC
TPYSNESGLV
PTSPAYSPTS
PSYSPTSPSY
SPGSPAYSPK
MDETQTRAKI
LMRQALAIKD
VLSTEEILNI
HNGAPHHAIE
LDQVGVPKSI
PVLFNRQPSL
MGIVQDTLCG
KDNGMLIIDG
ETIAEAKKKV
MSACVGQQSV
LVKALEDIMV
GDLKLQVLLD
RGKNEIIQNA
LNTFHFAGVA
TVIPEDEEII
RVVRPKSLDA
GIDPTRIYTN
SFEETVEILF
NADLDVKDEL
PSYSPTSPSY
SPTSPSYSPT
QDEQKHNENE
GGLNDPRLGS
SKKRFAAIWT
FKHISVKDFT
EAESLLQFHV
AKTLTYPEVV
HKMSMMAHRV
IRKLTLRDTF
QIIFGVVEKK
LDVTKEAQAN
EGKRIAFGFV
HYDNTTRNSL
EEYKQLVKDR
QRDAVTLFCC
SKKVTSGVPR
QLHFSLLDEE
ETEAEEDHML
SFIDIMEVLG
EAGASAELDD
MFSPLVDSGS
SPTSPSYSPT
SPSYSPTSPA
NSR.
CTD repeat: YSPTSPS
IDRNLKCQTC
LCKTKMVCET
SLGFNEVFSR
ATYMDNDIAG
TPYNIDRLTQ
KVIPYSTFRL
IELDQVLNML
TVGSSNGGLI
LLTAKHGMTL
DRTLPHFSKD
GNVIQFIYGE
KFLREVFVDG
LLRSRLATRR
LKEILNVAKN
AEQSFDQQSP
KKIENTMLEN
IEAGRAALYK
CRGVSENVIL
NDAMAGGFTA
SPSYSPTSPS
YSPTSPSYSP
QEGMNECPGH
DVPSEDDPTQ
PEWMILTCLP
QPQALQKSGR
LVRNGPNEHP
NLSVTSPYNA
YWVPDWDGVI
HVVTREKGPQ
RESFEDNVVR
DYSPESKGFV
DGMDAAHIEK
EANWPLPVNI
VLQEYRLTKQ
MKTPSLTVYL
WLLRLELDRA
ITLRGVENIE
EVYNVIASDG
GQMAPIGTGA
YGGADYGEAT
YSPTSPSYSP
TSPSYSPTSP
The FCP1 Gene Product (Fcp1)
1
41
81
121
161
201
241
281
321
361
401
441
481
521
561
601
641
681
721
MTTQIRSPQG
YLVERASDTG
EFFESPYEGD
VYGGLCTQCG
TGKALKEHLR
PNNPNFETLR
RKCWYYVKVR
AKIVDPTGEL
VVIDDRGDVW
TGMLQLGRKT
RQEEKLNHQL
NRPLAKLQKH
MLSQQNEPEP
IQRSDIVIWT
AKKFNPQIKI
DEELQNFQTQ
TSWLNNDDDE
KRSIEDNHDD
QLEEELMDML
LPYPIQIDKL
DDDNEHDVSP
LISWNVDVGD
KEVSADAFDG
RDKKLILVVD
DVKSFTLDEE
PGLKEFFAKV
FGDRILSRDE
NWCPNLIKVV
RQKSQESQEL
ATAEEPPANE
LHDQKLLVDD
NLMEIIPSLK
STFGATSTPD
VHPDWIFECL
LQKRQEYLEE
DIPDTASDDD
TSQKKTKAEP
DD.
IPSVGSYLHE
GGSAGSNGVS
EVATANQVIC
VPLDVVGDVD
LDQTIIHCGV
LVLPLMYMND
APLFEMHIYT
NGSLTTKSLA
PYNFFVGVGD
LTDIMDNEKK
SKEELTKKLE
DDELYYLMGT
QKVFQNCYFV
IDYLTTHLIT
VNWKKVDEKP
TQEQQHMLTS
EDDDHDDESD
SQDGPVQHKG
GDRLLVYKFW
PPTKQLRESI
EIKRPCNHDI
LQISETEAIR
DPTIAEWKND
DGSMLRPPPV
MATRAYALQI
KLFPTDQSMV
INSNFLPKQS
LQEKIDKEVK
YSASLEVQQQ
LSNIHKTYYD
FSGLIPLGTD
KNPSTYKARL
YTLIVDSPIS
QENLNLFAAG
DENNSEGIDR
EGDDNEDSDS
Halo-acid
dehalogenasetype
phosphatase
domain
BRCT
domain