Biochemistry Flashcards
what does methylation do to DNA
makes it mute- no transcription
acetylation of DNA
makes it active
which two bases get methylated on template strand?
cytoskine and adenine
3 amino acids needed for purine synthesis
glycine, aspartate, glutamine
leflunomide
this inhibits dihydroorotate dehydrogenase so you can’t convert carbamoyl phosphate to orotic acid
problem in orotic aciduria
can’t convert orotic acid to UMP
hydroxyurea
inhibits ribonucleotide reductase. can’t convert UDP to dUDP
5FU
inhibits thymidiylate synthase. can’t convert dUMP to dTMP
MTX/ TMP and pyrimethamine
inhibits dihydrofoalte reductase in humans, bacteria and protozoa respectively.
6MP
inhibits purine synthesis
Mycofenolate and ribavarin
inhibits IMP dehydrogenase so can’t make purines
amino acid required for pyrimidine base production
aspartate
adenosine deaminase deficiency
excess ATP and dATP because can’t convert adenosine to inosine. makes you go through the pathway one way. major cause of autosomal recessive SCID. via negative feedback you get a reduction in activity of ribonucleotide reductase- decreased lymphocyte count
Lesch Nyhan syndrome
defective purine salvage due to absent HGPRT. this means you can’t recover them and you end up dumping many more into xanthine then into uric acid. also get increased de novo purine synthesis.
genetics of Lesch Nyhan
x linked recessive
findings in lesch nyhan
intelectual disability, self mutilfation, aggresion, hyperuricemia, gout, dystonia
difference between DNA pol I and III
DNA pol I has an ability to excise the RNA primer in the 5-3 direction- its an exonuclease
Which is the polymerse (DNA) that is seen in eukaryotes
DNA pol III
what is the order of the danger of mutations
some men never finish
silent< frameshift
disease that is a problem with nucleotide excision repair
defective in xeroderma pigmentosum which prevents repair of pyrimidine dimers because of UV light exposre
disease that results from a problem with mismatch repair
HNPCC-
how does base excision repair work
AP endonuclease leaves the 5’ end
lyase cleaves the 3’ end
DNA polymerase beta fills the gap
DNA ligase seals it
disease from a problem with non homologous end joining
ataxia telangiectasia
what direction is DNA or RNA read
5 to 3
mRNA start codons
AUG
what is the start codon also indicate (which amino acid)
methionine in eukaryotes and formeylmethionine in prokaryotes
mRNA stop codons
U go away
U are away
U are gone.
UGA
UAA
UAG
what does rna polymerase I make
rRNA
what does rna polymerase II make
mRNA. the most massive.
what does rna polymerase III make
tRNA
how does alpha amanitin in amanita phalloides (mushroom) make people sick
inhibits RNA pol II. severe hepatotoxicity if ingested
how is RNA pol different in prokaryotes from eukaryotes
only one in prokaryotes. 3 in eukaryotes.
where do the post transcriptional modifications like caping of the 5’ end, polyadenylation and splicing of introns occur?
in the nucleus following transcription
what is the mRNA called before it is processed
hnRNA or heterogenous nuclear RNA
what are P bodies
mRNA quality control- contain decapping enzymes, endonucleases etc.
what diseases are anti splicesome antibodies associated with
anti Smith - lupus
anti U1 RNP - mixed connective tissue disease
disease from abnormal splicing (genetic)
beta thal
which end of the tRNA is the amino acid bound?
CCA on the 3’ end. “can carry aminoacid”
T arm of tRNA
binds to the ribosome
D arm of the tRNA
allows for recognition of the right aminoacul tRNA synthetase.
what is responsible for the accuracy of amino acid selection
amionacyl tRNA synthetase and binding of charged tRNA to the codon
what is the function of aminoacyl tRNA synthetase
to add the amino acid to the tRNA molecule
energy source for tRNA activation
ATP
energy source for tRNA translocation
GTP
function of P53 and rb in cell cycle
they are normally present to inhibit G1 to S migration.
Li-Fraumeni syndrome
this is a mutation in the Rb or P53 genes such that there is unrestrained cell division
cell type- neurons, skeletal muscle, cardiac muscle and RBCs
permanent
stable but quiescent cells
Heptocytes and lymphocytes. normally in Go but can enter G1 if stimulated to do so
I cell disease
inherited lyososomal storage disorder. defect in phosphotransferase which means failure of the golgi to phosphorylate mannose residues (doesn’t put the mannose 6 phosphate on that would signal it to the lysosome) so the proteins are excreted instead of being sent to the lysosomes. coarse facial features, clouded corneas, restricted joint movement, high plasma levels of lysosomal enzymes. fatal.
proteins accumulating in the cytoplasm?
signal recognition particle (SRP) absent or dysfunctional. this normally traffics to the rough ER
COPI I
golgi to golgi or golgi to ER
COPI II
golgi to golgi or ER to golgi
Clathrin
trans golgi to lysosomes or endosomes or plasma membrane.
kartagener syndrome
this is primary ciliary dyskinesia. immotile cilia due to a dynein arm defect. results in infertility, immotile sperm, fallopian tube issues, bronchiectasis, recurrent sinusitis, situs inversus
vimentin
connective tissue
Desmin
muscle
cytokeratin or keratin
epithelium
GFAP
neuroglia
Neurofilaments
neurons
type I collagen
most abundant. bone, skin (dermis), tendon, dentin, fascia, cornea, scar
deficiency in type I collagen
osteogenesis imperfecta
Type II collagen
cartilage, vitreous body, nucleus pulposus
Type III collagen
reticulin, epidermis, blood vessels, uterus, fetal tissue, kidney, GRANULATION TISSUE
deficiency in type 3 collagen?
EDS vascular type
Type IV collagen
basement membrane, basal lamina, lens
problem wit type IV collagen
defective in alport syndrome. targeted by antibodies in good pasture syndrome
what is the most common aa in collagen
glycine
what are the other two aa in collagen
proline and lysine
what disease has an issue with collagen hydroxylation
scurvy. hydroxylation of specific proline and lysine residues. requires vitamin C.
what disease has a problem with glycosylation of collagen
pro alpha chain is turned into pro-collagen via hydrogen and disulfide bonds. this turns it into a triple helix called procollagen. problems with this are seen in osteogenesis imperfecta
proteolytic cleavage of collagen
cleavage of disulfide rich terminal regions of procollagen turning it into insoluble tropocollagen.
cross linking of collagen
re-inforcement of many staggered tropocollagen molecules by lysyl oxidase. requires Cu as a co factor to make the collagen fibrils. this is defective in EDS and menkes disease.
what is the most common problem in osteogenesis imperfecta
decreased production of otherwise normal collagen type 1
pneumonic for Southern, Western, Northern blot
SNoW DRoP
indirect ELISA tests for
antigen
direct ELISA test for
antibody
pleiotropy
one gene effects multiple phenotypes like PKU causing light skin, intellectual issues and musty body odor
locus heterogeneity
mutations at different loci can produce a similar phenotype like with albinism
allelic heterogeneity
different mutations in the same locus produce the same phenotype such as with beta thal
prader willi
chromosome 15. paternal is deleted or mutated while maternal is imprinted. can be caused by maternal uniparental disomy
angelman syndrome
chromosome 15. maternal is deleted or mutated and paternal is imprinted.
symptoms of angelman syndrome
seizures, atazxia and severe intellectual disability with inappropriate laughter- always happy puppet
AD mutations are usually
defects in structural genes
AR mutations are usually…
cause enzyme deficiency
myopathy with ragged red fibers
this is mitochondrial myopathy- myopathy with lactic acidosis, failure in oxidative phosphorylation.
huntington disease chromosome
4
PKD1 mutations in ADPKD chromosome
number 16
PKD2 mutations in ADPKD chromosome
number 4
FAP chromosome
5