Final review Flashcards
histones rich in what AA
lysine and arginine
uracil formed by
deamination of cytosine
AAs coded by only 1 codon
methionine (AUG)
tryptophan (UGG)
genetic code is NOT conserved in?
mitochondria
telomerase is what kind of enzyme
reverse transcriptase enzyme (RNA-dependent DNA polymerase)
eukaryotic DNA Polymerase alpha function
makes own primer
replicates lagging strand
eukaryotic DNA Polymerase beta function
replic leading strand
eukaryotic DNA Polymerase delta function
DNA repair
eukaryotic DNA Polymerase gamma function
replic mitochondrial DNA
NER vs BER
NER - endonuclease first
BER - glycosylase first
what does amanitin (mushroom poison) do
inhib RNA polymerase II
where does mRNA processing take place
nucleus
antibodies to spliceosomal snRNPs seen in what pts
Lupus
noncoding RNAs are
carry out out functions w/o first being translated
snRNA
rRNA
tRNA
tRNAs contain what anticodon @ 3’ end
CCA
tRNA charged via? and using?
aminoacyl-tRNA synthetase
using ATP
where does start codon first attach on ribosome
P site
aminoglycosides MOA
bind 30S + inhib formation of initiation complex causing mRNA misreading
tetracyclines MOA
bind 30S + block aminoacyl-tRNA for entering A site
chloramphenicol MOA
binds 50S + inhibit peptidyl transferase (23S rRNA)
macrolides MOA
binds 50S + prevent release of uncharged tRNA after it donates its AA (prevents TRANSLOCATION)
clindamycin + lincomycin MOA
bind 50S + block translocation
nissl bodies are
RER in neurons (seen in DENDRITES)
free ribosome function
synth of cytosolic + organellar proteins
RER rich areas =
mucus-secreting goblet cells of SI
AB-secreting plasma cells
SER rich areas =
liver hepatocytes
steroid-hormone producing cells in adrenal cortex
COPI vesicle trafficking
Golgi–>ER
retrograde Golgi transport
COPII vesicle trafficking
ER—>Golgi (cis)
anterograde Golgi transport
Clathrin vesicle trafficking
trans-Golgi –> lysosomes
plasma membrane –> endosomes (receptor-mediated endocytosis)
def in peroxisome function leads to
accum of VLCFA
protein translation initiation/termination depends on a
GTPase
dynein moves
retrograde (from +–>-)
towards nucleus
kinesin moves
anterograde (from - –> +)
towards axon/nerve terminal
axonemal dynein is an?
ATPase (causes bending of cilium)
ouabain binds to what
K+ site on Na/K ATPase
ligamentum flava connects
vertebrae
elastin is rich in what AAs
proline + glycine (NONhydroxylated)
indirect ELISA
use test antigen to find Ab
direct ELISA
use Ab to find antigen
Southern blot =
DNA sample and DNA probe
Nouthern blot =
RNA sample w/ DNA probe
useful for mRNA studies!
Western blot =
protein sample w/ Ab probe
Southwestern blot =
DNA-binding protein (TF) w/ oligonucleotide probe
fluorescence preferred to visualize
microdeletions! (things at a MOLECULAR level)
cDNA only contains
CODING portion of gene (exons)
AD diseases usually are
defects in structural genes
AR diseases are usually
enzyme deficiencies
folate and B12 stored in
liver
B1 required for enzymes:
alpha-ketoglutarate
transketolase
Pyruvate DH
branched-chain amino acid DH
B7 cofactor for enzymes:
in carboxylation!
pyruvate carboxylase (pyruvate –> OA)
acetyl-CoA carboxylase (acetyl-CoA –> malonyl CoA)
propionyl-CoA carboxylase (propionyl CoA –> methylmalonyl CoA)
B12 cofactor for enzymes:
homocysteine methyltransferase (homocysteine --> methionine); indirectly affects SAM (bc needs methionine) methylmalonyl-CoA mutase (methylmalonyl-CoA --> succinyl CoA)
4 functions of vit C
1) antioxidant
2) keeps Fe in reduced state (so increases absorption)
3) hydroxylation of proline and lysine for collagen
4) in dopamine beta-hydroxylase –> convert dopamine to NE
ethanol metab shunts which 2 processes
pyruvate –> lactate
OAA –> malate
to regen NAD+!
inhibs gluconeogenesis + stim FA synth
mitochondria is site of
FA oxidation (beta-oxidation)
acetyl-CoA prod
TCA cycle
oxidative phosphorylation
cytoplasm is site of
glycolysis FA synthesis HMP shunt protein synth (RER) steroid synth (SER) cholesterol synth
mitochondria AND cytoplasm are sites for
Heme synth
Urea cycle
Gluconeogenesis
phosphorylase
adds inorganic phosphate W/O using ATP!!
shuttle producing 32 ATP
malate-aspartate (in heart/liver)
shuttle producing 30 ATP
glycerol-3-phosphate (muscle)
hexokinase properties
LOW Km and Vmax
UNINDUCED by insulin
glucokinase properties
HIGH Km and Vmax
INDUCED by insulin
fasting state changes seen in glycolysis/gluconeogenesis
increased FBPase-2, cAMP
decreased PFK-1, PFK-2, fructose-2,6-bisphosphate
glucagon!!
increased fructose-2,6-bisphosphate is sign of what state
fed
fed state changes seen in glycolysis/gluconeogenesis
decreased FBPase-2, cAMP
increased PFK-1, PFK-2, fructose-2,6-bisphosphate
insulin!!
carboxylase function
adds CO2 group w/ help of biotin!
when you see F-2,6-Bisphosphate think:
there’s enough glucose, we need more energy!
arsenic poisoning key feature
garlic breath
similar to pyruvate DH complex
alpha-ketoglutarate DH complex
pyruvate DH complex deficiency features
buildup of pyruvate and alanine –> lactic acidosis
X-linked gene mut of E1-alpha subunit
neuro deficits in infancy!
pyruvate DH complex deficiency tx
increase ketogenic nutrients:
high fat content
increase LEUCINE or LYSINE intake
Cori disease vs. von Gierke disease
Cori - NORMAL blood lactate levels
von Gierke - elevated lactate + hepatic steatosis
Niemann-Pick vs. Tay-Sachs
Tay-Sachs has NO hepatosplenomegaly
Hurler’s synd vs. Hunter’s synd
Hunter’s synd:
NO corneal clouding!
aggressive behavior
X-linked!
4 fates of pyruvate
alanine
OAA
acetyl-CoA
lactate
pyruvate –> alanine
alanine aminotransferase (w/ B6) - amino group from liver to muscle (from glutamate)
pyruvate –> OAA
pyruvate carboxylase (w/ biotin) - OAA can replenish TCA cycle or go to GNG
pyruvate –> acetyl-CoA
pyruvate DH complex (B1, B2, B3, B5, lipoic acid) - glycolysis to TCA cycle
pyruvate –> lactate
LDH (w/ B3) - anaerobic glycolysis (RBCs, kidney medulla, lens, testes, cornea)
citrate synthase rxn
acetyl-CoA –> citrate
isocitrate DH rxn
isocitrate –> alpha-ketoglutarate
alpha-ketoglutarate DH rxn
alpha-KG –> succinyl-CoA
succinate DH is part of?
complex II in ETC and uses FADH2
converts succinate –> fumarate
blocks complex I of ETC
amytal
rotenone
MPP
blocks complex III of ETC
antimycin A
blocks complex IV of ETC
H2S
CO
sodium azide (N3-)
CN-
blocks ATPase of ETC
oligomycin A
uncoupling agents do what in ETC
produce heat by allowing H+ to leak down their concentration gradient
examples of uncoupling agents
2,4-DNP
thermogenin (in brown fat)
aspirin
sites for HMP shunt (pentose phosphate pathway)
lactating mammary glands
liver
adrenal cortex
RBCs
AA required during periods of growth
Arg
His
what donates NH4 group to citrulline to make argininosuccinate
aspartate
catalyzed by arginosuccinate synthetase
ornithine transcarbamoylase rxn
ornithine –> citrulline
in urea cycle, argininosuccinate to arginine step creates what?
fumarate
which step creates urea
arginine to ornithine via arginase
what 2 AA can be used in urea cycle to remove NH4
alanine
glutamate (w/ NH4 –> becomes glutamine which is directly transported to liver from muscles)
tx for hyperammonia
reduce protein intake
benzoate, phenylbutyrate (bind AA –> facilitate excretion)
lactulose - acidify GI tract + trap NH4
homocystinuria vs. Marfan
lens subluxation in:
- Marfan = upward
- homocystinuria = downward and inward
accum of what AA in maple syrup urine dz
Ile
Val
Leu (especially this)
FA synth begins w/
citrate (in mitochondria) –> transport to cytoplasm + become acetyl-CoA by ATP citrate lyase
FA degrad inhib by
malonyl-CoA
urine tests detect which ketone
acetoacetate only
function of pancreatic lipase
degrad of TG in SI
function of LPL
degrad of TG in chylomicrons and VLDLs
function of hepatic lipase
degrad of TG in IDLs
function of hormone-sensitive lipase
degrad of TG in adipocytes
function of LCAT (lecithin-cholesterol acyltransferase)
esterification of cholesterol
function of CETP (cholesterol ester transfer protein)
transfer of cholesterol esters to other lipoprotein particles
chylomicron function
TG --> peripheral tissues chylomicron remnants (depleted of TG): cholesterol --> liver secreted by intestinal epith cells
VLDL function
hepatic TG –> periph tissues
secreted by liver
IDL function
TG + cholesterol –> liver
formed in degrad of VLDL
LDL function
hepatic cholesterol –> periph tissues
taken up via recept-med endocytosis
formed by hepatic lipase modif of IDL in periph tissue
HDL function
cholesterol from periphery –> liver
repository of apoC and apoE
secreted from liver and intestine
hyperchylomicronemia vs. familial hypercholesterolemia
no increased risk of atherosclerosis in hyperchylomicronemia (but pancreatitis!)
thalamus a relay for everything except?
olfaction!
increase preload by
increased BV (overhydration, transfusion, preg)
exercise (slight)
increased sympathetic activity
wide splitting seen in conditions that
delay RV emptying like pulm stenosis, RBBB
exaggeration of normal inspiration split, but ALSO split in expiration (but by less)
fixed splitting seen in
ASD; pulmonic closure delayed regardless of breath by SAME amount
paradoxical splitting seen in
delayed LV emptying (like aortic stenosis, LBBB)
P2 occurs BEFORE A2, and paradoxically, on inspiration gets closer to A2 thereby eliminating the split
only virus w/ 2 identical ssRNA molecules
retrovirus
only DNA virus that replicates in cytoplasm
poxvirus
others replic in nucleus
only 2 RNA viruses that replicate in nucleus
influenza, retrovirus
others replic in cytoplasm
virus that acquires its envelope from nuclear membrane
herpesvirus family
ONLY ssDNA virus
parvovirus
all DNA viruses are linear except:
papilloma, polyoma (circular, supercoiled)
hepadna (circular, incomplete)
all DNA viruses are icosahedral except:
poxvirus (complex)
3 poxviruses:
variola (smallpox)
vaccinia (cowpox - provides immunity to smallpox)
Molluscum contagiosum
EBV latent in
B-cells
CMV latent in
mononuclear cells (lymphocytes, monocytes)
Roseola features:
high fevers that can cause seizures, followed by macular rash
Tzank test to check for
HSV-1, 2
VZV
Deformed cell seen in EBV infection
atypical lymphocytes (CD8+ reactive T-cells) aka Downey cells (w/ foamy appearing basophilic cytoplasm)
drug that forms a maculopapular rash that covers trunk + extremities when given to EBV mono pt
amoxicillin
all picornaviruses are _________ except __________
enteroviruses (fecal-oral spread)
rhinovirus is not
rhinovirus is unique from other picornaviruses in that
it is destroyed by stomach acid and therefore does not cause GI dz
1 cause of fatal diarrhea in children + its MOA
rotavirus - decrease reabsorp of Na and loss of K (due to villous destruction)
paramyxoviruses contain what protein
F (fusion) protein –> resp eptih cells to fuse + form multinucleated cells
tx for RSV pneumonia in pre-mature infants
palivizumab (Mab against F protein)
also, ribavirin
measles vs. rubella rash
both are descending maculopapular rashes, BUT:
measles - involves hands/feet
rubella - truncal
complications of measles
SSPE (subacute sclerosing panencephalitis)
encephalitis
giant cell pneumo (rare)
rabies infection found in what part of brain
Purkinje cells of cerebellum (Negri bodies seen in neurons)
vaccines available for which hepatitis viruses
HAV, HBV (and HDV by extension)
env gene in HIV forms
envelope proteins gp120 and gp41 (from cleavage of gp160)
gp120 function in HIV
attachment to host CD4+ T-cell
gp41 function in HIV
fusion and entry
gag gene in HIV is also known as? and forms what?
p24
capsid protein
pol gene in HIV forms
reverse transcriptase
aspartate protease
integrase
nef gene in HIV does what?
decreases expression MHC class I proteins on surface of infected cells
false negative ELISA/Western blot seen in which HIV population
those w/ acute infection (bc low Ab)
false positive ELISA/Western blot seen in which HIV population
babies born to infected mothers bc gp120 crosses placenta
latent HIV phase, virus replicates in where in body
LN
oral candidiasis in HIV pts when CD4 < ?
400
esophageal candidiasis in HIV pts when CD4 < ?
100
histo difference in B.henselae vs Kaposi sarcoma in HIV
B.hens = NEUTROPHILIC infiltrate Kaposi = LYMPHOCYTIC infiltrate
opportunistic infections seen with CD4 < 400
oral candidiasis
opportunistic infections seen with CD4 < 200
cryptosporidium - diarrhea
JC virus (reactivation) - PML
PCP
opportunistic infections seen with CD4 < 100
esophageal candida
Histoplasmosis dissem dz (HSM, fever, cough, etc)
Toxoplasmosis (MANY ring-enhancing lesions)
opportunistic infections seen with CD4 < 50
C.neoformans
CMV retinitis (cotton-wool spots)
MAC
T.gondii vs. primary CNS lymphoma in HIV pts (histo)
T.gondii - MANY ring-enhancing lesions
CNS lymphoma - usually FOCAL lesion