name: _____________________

age 1 of 12




8lochemlsLry 413/313
MldLerm Lxam #1



name: ________________________________________



unlqname: ________________________________________



uMlu#: _______________________________________

name: _____________________
age 2 of 12

!"#$%&'$()"#*
1. lease puL your name on each page of Lhe exam, your name, unlqname, and uMlu number on
Lhe flrsL page, and flll ouL Lhe scanLron sheeL wlLh your name and uMlu number.

2. llrsL, read Lhrough Lhe exam. Answer Lhe lmmedlaLely obvlous quesLlons when you can. uL a
quesLlon mark by Lhe ones you're noL sure abouL.

3. 8alse your hand Lo ask quesLlons. lL ls posslble LhaL you may be focuslng on a phrase LhaL can be
sLaLed dlfferenLly

4. Mark your answers on Lhe wrlLLen exam, as well as Lhe scanLron answer sheeL.


1. Whlch of Lhe followlng lnLeracLlons ls generally consldered Lhe weakesL?
a. Slngle covalenL bond
b. uouble covalenL bond
c. LlecLrosLaLlc lnLeracLlon
d. Pydrogen bond
e. van der Waals lnLeracLlon

2. Whlch of Lhe followlng lnLeracLlons represenLs a hydrogen bond? oLenLlal hydrogen bonds are
lllusLraLed by a dashed llne.

l. n-P-------n
ll. n-P-------C
lll. n-P-------P
a. l
b. ll
c. lll
d. l and ll
e. ll and ll

3. Whlch of Lhe followlng lnLeracLlons helps Lo sLablllze Lhe sLrucLure of Lhe unA double hellx?
a. Pydrogen bondlng beLween Lhe C-C and A-1 base palrs
b. van der Waals lnLeracLlons beLween pyrlmldlne and purlne bases sLacked ln Lhe lnLerlor
of Lhe double hellx
c. ALLracLlve elecLrosLaLlc lnLeracLlons beLween Lhe phosphaLe backbones of Lhe Lwo unA
sLrands
d. A and 8
e. A, 8, and C

name: _____________________
age 3 of 12

4. AceLlc acld has a pka value of 4.73. WhaL ls Lhe raLlo of [CP
3
CCC
-
]/[CP
3
CCCP] when aceLlc acld ls aL
a pP of 4.73? 1he Penderson-Passelbalch equaLlon ls pP = pka + log([A
-
]/[PA])
a. 0.1
b. 0.3
c. 1
d. 2
e. 10

3. Whlch amlno acld can form dlsulflde bonds?
a. CysLelne
b. MeLhlonlne
c. Serlne
d. 1hreonlne
e. A and 8

6. Whlch amlno acld ls Lhls?
a. Arglnlne
b. AsparLaLe
c. Asparaglne
d. CluLamaLe
e. CluLamlne



7. 1he slde chaln of whlch of Lhe followlng amlno aclds would be almosL compleLely deproLonaLed aL
pP 7.0?
a. Arglnlne
b. CluLamaLe
c. CluLamlne
d. Lyslne
e. 1yroslne


8. 1he sl angle (+) descrlbes Lhe roLaLlon around whlch bond ln a polypepLlde chaln?
a. C! -n bond
b. C - n bond
c. C! - C bond
d. C - C bond
e. none of Lhe above


H
2
N CH C
CH
2
OH
O
C
NH
2
O
name: _____________________
age 4 of 12

9. Whlch of Lhe followlng sLaLemenLs descrlbes Lhe properLles of -sheeLs?
a. Pydrogen bondlng occurs beLween Lhe carbonyl oxygen aLom of one -sLrand and Lhe
amlde nlLrogen aLom of a nelghborlng -sLrand.
b. 1he sLrands ln -sheeLs can have parallel or anLl-parallel orlenLaLlons.
c. All of Lhe slde chalns of Lhe amlno aclds are found one slde of Lhe -sheeL.
d. A and 8
e. A, 8, and C


10. 8ased on your undersLandlng of Lhe foldlng and denaLuraLlon of rlbonuclease A, whlch of Lhe
followlng molecules ls needed Lo fully denaLure Lhe sLrucLure of chymoLrypsln?
a. Cuanldlnlum chlorlde
b. -mercapLoeLhanol
c. Clyclne
d. A and 8
e. A and C

11. Whlch of followlng besL descrlbes Lhe arrangemenL of Lhe Lwo o and Lwo subunlLs ln hemoglobln?
a. rlmary sLrucLure
b. Secondary sLrucLure
c. 1erLlary sLrucLure
d. CuaLernary sLrucLure
e. none of Lhe above

12. Whlch of followlng sLaLemenLs abouL myoglobln ls 18uL?
a. Myoglobln conslsLs of four subunlLs.
b. 1here ls only one heme group bound Lo myoglobln.
c. Myoglobln exhlblLs cooperaLlvlLy ln blndlng Lo C
2
.
d. Myoglobln LransporLs C
2
ln red blood cells.
e. none of Lhe above sLaLemenLs are Lrue.

13. Whlch of Lhe followlng sLaLemenLs descrlbes Lhe funcLlon of Lhe dlsLal hlsLldlne ln hemoglobln?
a. 1he dlsLal hlsLldlne forms a hydrogen bond wlLh C
2
.
b. 1he dlsLal hlsLldlne coordlnaLes Lhe lron ln Lhe heme group.
c. 1he dlsLal hlsLldlne prevenLs Lhe formaLlon of a superoxlde lon from C
2
.
d. A and C
e. 8 and C




name: _____________________
age 3 of 12

14. Whlch of Lhe followlng affecLs Lhe afflnlLy of hemoglobln for C
2
?
a. C
2
pressure
b. 2,3-blsphosphoglyceraLe (2,3-8C)
c. pP
d. CC
2
pressure
e. All of Lhe above

13. Whlch of Lhe followlng sLaLemenLs abouL slckle cell anemla ls lALSL?
a. lndlvlduals wlLh Lwo coples of Lhe Pemoglobln S (PbS) alleles have Lhe dlsease.
b. lL ls mosL common ln areas wlLh a hlgh prevalence of malarla.
c. lL causes hemoglobln Lo aggregaLe.
d. lL ls caused by a muLaLlon ln Lhe o subunlL of hemoglobln.
e. 1he PbS muLaLlon causes Lhe red blood cells Lo adopL a slckle shape.

16. Whlch of Lhe followlng sLaLemenLs abouL enzymes ls 18uL?
a. Lnzymes can recognlze subsLraLes by a lock and key mechanlsm or an lnduced flL
mechanlsm.
b. Amlno aclds LhaL form Lhe acLlve slLe frequenLly orlglnaLe from dlfferenL reglons of Lhe
prlmary sLrucLure of Lhe enzyme.
c. Lnzymes decrease Lhe free energy of Lhe LranslLlon sLaLe for Lhe converslon of Lhe
subsLraLe Lo Lhe producL.
d. Lnzymes caLalyze reacLlons by changlng Lhe free energles of Lhe subsLraLe and producL.
e. A, 8, and C

17. Whlch of Lhe followlng resldues ln chymoLrypsln funcLlons ln Lhe caLalyLlc Lrlad and Lhe oxyanlon
hole?
a. Pls-37
b. Asp-102
c. Cly-193
d. Ser-193
e. none of Lhe above








name: _____________________
age 6 of 12

18. A blochemlsL has prepared a serles of synLheLlc amlno aclds Lo LesL as subsLraLes for chymoLrypsln.
8ased on your knowledge of lLs subsLraLe speclflclLy, chymoLrypsln wlll mosL efflclenLly hydrolyze
Lhe pepLlde bond followlng whlch synLheLlc amlno acld?

A 8 C














u L






19. Whlch of Lhe followlng values deflnes Lhe maxlmum raLe of an enzyme-caLalyzed reacLlon aL a
speclflc concenLraLlon of enzyme?
a. k
caL

b. k
M

c. k
caL
/k
M

d. v
max

e. none of Lhe above

20. ln whlch of Lhe followlng Lypes of lnhlblLlon ls Lhe apparenL k
M
value of Lhe enzyme alLered?
a. CompeLlLlve lnhlblLlon
b. noncompeLlLlve lnhlblLlon
c. uncompeLlLlve lnhlblLlon
d. A and 8
e. A and C

H
2
N CH C
CH
2
OH
O
CH
3
H
2
N CH C
CH
2
OH
O
CH
3
H
2
N CH C
CH
2
OH
O
CH
2
CH
2
NH
3
+
H
2
N CH C
CH
OH
O
OH
CH
2
OH
H
2
N CH C
CH
2
OH
O
HC
C
O
-
C
O
O
O
-
name: _____________________
age 7 of 12

21. enlclllln ls an example of whlch Lype of enzyme lnhlblLor?
a. AfflnlLy label
b. Croup speclflc reagenL
c. Sulclde lnhlblLor
d. uncompeLlLlve lnhlblLor
e. none of Lhe above

22. Whlch of followlng molecules favors Lhe 8 sLaLe of asparLaLe Lranscarbamoylase (A1Case)?
a. Adenoslne LrlphosphaLe (A1)
b. CyLldlne LrlphosphaLe (C1)
c. n-(phosphonoaceLyl)-L-asparLaLe (ALA)
d. A and C
e. 8 and C

23. Whlch of Lhe followlng sLaLemenLs abouL proLeln phosphorylaLlon ls 18uL?
a. A1 ls used as Lhe subsLraLe Lo phosphorylaLe proLelns.
b. Cnly serlnes and Lhreonlnes ln proLelns can be phosphorylaLed.
c. A phosphorylaLed amlno acld ln a proLeln has a charge of -1.
d. A and C
e. A, 8, and C

24. ln Lhe processlng of chymoLrypslnogen Lo chymoLrypsln, whlch of Lhe followlng proLeases cleaves
n-chymoLrypsln Lo form o-chymoLrypsln?
a. CarboxypepLldase
b. ChymoLrypsln
c. LlasLase
d. LnLeroklnase
e. 1rypsln

23. Whlch of followlng properLles composes Llplnskl's 8ules for drug absorpLlon?
a. number of hydrogen bond donors and accepLors ln Lhe drug
b. Molecular welghL of Lhe drug
c. 1he ocLanol-waLer parLlLlon coefflclenL (log(!) value)
d. A and 8
e. A, 8, and C





name: _____________________
age 8 of 12

lease use Lhe sLrucLures of Lhe followlng drugs Lo answer CuesLlons 26 - 28.
A 8






C u





L







26. Whlch of Lhe drugs above ls a non-sLeroldal anLl-lnflammaLory drug (nSAlu) LhaL lrreverslbly
lnhlblLs cyclooxygenase (CCx)?

27. Whlch of Lhe drugs above ls used ln Lhe LreaLmenL of Puman lmmunodeflclency vlrus (Plv) and
lnhlblLs Plv proLease?

28. Whlch of Lhe drugs above ls an anLlbloLlc used Lo LreaL bacLerlal lnfecLlons?

name: _____________________
age 9 of 12

29. Whlch properLy of unA was flrsL demonsLraLed by Lhe Meselson and SLahl experlmenL (1938)?
a. Lhe polynucleoLlde chalns of unA exlsL ln an anLl-parallel orlenLaLlon
b. Lhe nuclelc acld componenL of cells conLalns Lhe geneLlc lnformaLlon
c. unA ls repllcaLed ln a seml-conservaLlve fashlon
d. Lhe raLlo of A:1 and C:C ln human cells ls very close Lo 1.0
e. All of Lhe above

30. ldenLlfy Lhe followlng nlLrogenous base:
a. uracll
b. Cuanlne
c. 1hymlne
d. CyLoslne
e. Adenlne

31. Whlch of Lhe followlng sLaLemenLs regardlng Lhe melLlng polnL (1
M
) of a unA double hellx ls nC1
Lrue?
a. MlsmaLched bases wlll decrease Lhe 1
M

b. lncreaslng Lhe hydrophoblclLy of Lhe soluLlon wlll decrease Lhe 1
M

c. 1he 1
M
can be ldenLlfled experlmenLally as Lhe LemperaLure aL whlch absorbance aL 260
nm peaks
d. Anneallng of a separaLed unA sLrands usually occurs 10-20
o
C below Lhe 1
M

e. lncreaslng Lhe frequency of C-C base palrs ln a glven sequence of unA wlll lncrease Lhe
1
M



32. Whlch of Lhe followlng sLaLemenLs are Lrue of m8nA ln 8C1P prokaryoLes and eukaryoLes?

l. Cnly Lhe sense sLrand of unA ls Lranscrlbed lnLo m8nA
ll. MosL m8nAs are spllced Lo remove lnLrons prlor Lo proLeln LranslaLlon
lll. 1he AuC codon ls normally Lhe flrsL codon LranslaLed
lv. m8nA ls modlfled before LranslaLlon
v. romoLer slLes 3' of Lhe gene deLermlne where LranscrlpLlon beglns

a. l and v
b. lll and v
c. v only
d. l, lll, and v
e. none are Lrue ln boLh prokaryoLes and eukaryoLes

name: _____________________
age 10 of 12

33. All of Lhe followlng sLaLemenLs abouL resLrlcLlon enzymes are Lrue LxCL1:
a. 8esLrlcLlon enzymes proLecL bacLerla from vlral lnfecLlon
b. 1he sequences recognlzed by resLrlcLlon enzymes are usually pallndromlc
c. 8esLrlcLlon enzymes can be used Lo screen for polymorphlsms or muLaLlons ln unA
d. 8esLrlcLlon enzymes recognlze Lhelr LargeL sequence by blndlng Lo Lhe ma[or grove of
unA
e. Cnly one sLrand of unA ls hydrolyzed by resLrlcLlon enzymes

34. ?ou wlsh Lo ldenLlfy a gene fragmenL conLalnlng Lhe followlng unA sequence by SouLhern 8loL:
5 AGT GGC AGT AAT GCT TCT ACG 3
Whlch of Lhe followlng probe sequences would besL hybrldlze wlLh Lhe LargeL sequence above?
a. 5 AGT GGC AGT AAT GCT TCT ACG 3
b. 5 CGT AGA AGC ATT ACT GCC ACT 3
c. 5 AGU GGC AGU AAU GCU UCU ACG 3
d. 5 TCA CCG TCA TTA CGA AGA TGC 3
e. 3 AGT GGC AGT AAT GCT TCT ACG 5

33. Whlch of Lhe followlng sLaLemenLs are 18uL of Lhe polymerase chaln reacLlon (C8)?

l. 1he enLlreLy of Lhe LargeL sequence musL be known
ll. unA from any specles can be used as a LemplaLe
lll. uldeoxynucleoLldes are essenLlal Lo Lhe reacLlon
lv. 1he prlmer sequences used are lncorporaLed lnLo Lhe ampllfled fragmenLs
v. C8 can be used Lo screen for geneLlc polymorphlsms or muLaLlons

a. l, ll, and v
b. ll and v
c. lv and v
d. l, ll, lv, and v
e. ll, lv, and v




name: _____________________
age 11 of 12

36. Whlch of Lhe followlng Lechnlques normally uLlllze homologous recomblnaLlon beLween slmllar unA
sequences?
a. CeneraLlng a knockouL mouse sLraln
b. lnserLlng a gene of lnLeresL lnLo a bacLerlal plasmld
c. Mapplng Lhe resLrlcLlon enzyme cleavage slLes ln a glven unA sequence
d. roblng a norLhern 8loL for a speclflc 8nA sequence
e. CeneraLlon of lS cells

37. All of Lhe followlng Lechnlques use unA polymerase ln some way LxCL1:
a. C8
b. Solld hase CllgonucleoLlde SynLhesls
c. unA sequenclng
d. Mlcroarray Cene Lxpresslon roflllng
e. 8 and u


38. Whlch of Lhe followlng sLaLemenLs regardlng nucleoLldes ls lALSL?
a. nucleoslde LrlphosphaLes are composed of a penLose sugar, a nlLrogenous base, and
Lhree phosphaLe groups
b. nucleoslde LrlphosphaLes conLalnlng deoxyrlbose are used durlng unA repllcaLlon
c. 1he y phosphaLe ls llnked dlrecLly Lo Lhe 3' carbon of Lhe penLose sugar and used ln Lhe
phosphodlesLer llnkage durlng unA repllcaLlon
d. 1he nlLrogenous base ls llnked Lo Lhe sugar by -Clycosldlc llnkage
e. 1he raLlo of purlnes Lo pyrlmldlnes ls very close Lo 1.0 ln Lhe human genome















,-./ 0123 453.

name: _____________________
age 12 of 12

39. ?ou perform unA sequenclng reacLlons and obLaln Lhe followlng resulL:

















WhaL ls Lhe unA sequence?

a. 5 ACT CAT GTG 3
b. 5 GGA AAT TCC 3
c. 5 TGA GTA CAC 3
d. 5 GTG TAC TCA 3
e. 5 CAC ATG AGT 3

40. Whlch of Lhe followlng sLaLemenLs ls lALSL regardlng Lhe geneLlc code?
a. 1hree nucleoLldes encode an amlno acld ln boLh prokaryoLes and eukaryoLes
b. MuLaLlng a slngle base ln Lhe proLeln-codlng reglon of a gene wlll almosL always lead Lo
a change ln Lhe amlno acld sequence of Lhe resulLlng proLeln
c. A glven codon ls always LranslaLed Lo Lhe same amlno acld
d. 1here are codons LhaL are noL LranslaLed lnLo amlno acld
e. Codons cannoL overlap