Biochemistry Flashcards
Which enzyme does Leflunomide interrupt?
Dihydroorate dehydrogenase
Which substance builds up with Leflunomide?
Carbamoyl phosphate
Which process do Methotrexate, Trimethoprim, and Pyrimethamine interrupt?
Pyrimide synthesis
How do Methotrexate, Trimethroprim and Pyrmethamine interrupt Pyrimidine synthesis?
Inhibit Dihydrofolate reductase
Which enzyme does 5-fluorouracil (5-FU) interrupt?
Thymidylate synthase (block dUMP–>dTMP)
Which molecule builds up when Dihydrofolate reductase is inhibited?
DHF
Which process does 6-mercacptopurine interrupt?
Purine synthesis
Which process do mycophenolate and ribavirin interrupt?
Purine synthesis
Which enzyme do Mycophenolate and ribavirin inhibit?
Inosine monophosphate dehydrogenase (IMP builds up)
Which substances disrupts both purine and pyrimidine synthesis?
Hydroxyurea
Which enzyme does hydroxyurea inhibit? What builds up?
Ribonucleotide reductase, UDP
Which enzyme is deficient in SCID?
Adenosine deaminase
Adenosine deaminase is responsible for
Degradation of deoxyadenosine and adenosine into inosine
What is the consequence of Adenosine Deaminase deficiency?
dATP accumulation, lymphocyte toxicity and death. Second most common cause of SCID
Which enzyme is defective in Lesch-Nyhan syndrome?
HGPRT
What is HGPRT responsible for?
Salvage purine pathway (AMP, IMP, GMP)
Which molecules buildup in HGPRT deficiency
Hypoxanthine, Xanthine and Uric acid
What is the function of Xanthine oxidase
Degrade hypoxanthine to xanthine, and xanthine to uric acid
What is the treatment for Lesch-Nyhand syndrome?
Allopurinol or Fuboxostat
What is the function of Allopurinol and Febuxostat
Inhibit Xanthine oxidase to decrease uric acid
How is Lesch-Nyhan inhertied
XLR
What are findings of Lesch-Nyhan
Hyperuricemia Gout Pissed off (aggression, self-mutilation) Retardation Dystonia
What is the function of Probenecid
Increase secretion of Uric acid into Urine
What does it mean when the genetic code is unambiguous
Each codon is specific for one amino acid
What does it mean when the genetic code is redundant
Each amino acid can be coded by multiple codons
Where is the TATA box located and what does it indicate
About 25bp upstream from promoter, origin of replication
Which DNA enzyme do fluoroquinolones inhibit?
Prokaryotic DNA Topoisomerase II (gyrase) and IV
Which DNA enzyme do Etoposide and Teniposide inhibit?
Eukaryotic Toposiomerase II
What is the function of DNA Polymerase III
Main prokaryotic replication enzyme. Synthesizes 5’->3’; proofreads 3’ -> 5’
What is the function of DNA Polymerase I?
Prokaryotes only, degrades RNA primer and replaces with DNA (5->3 exonuclease)
Which enzyme is often dysregulated in cancer cells?
Telomerase
Which phase of the cell cycle does Nucleotide Excision Repair occur in?
G1
Which sorts of lesions does Nucleotide Excision Repair fix
Bulky helix-distorting lesions
Xeroderma pigmentosum results from a defect in which type of DNA repair mechanism?
Nucleotide Excision Repair
How is xeroderma pigmentosum inherited?
Autosomal Recessive
Standard clinical vignette of xeroderma pigmentosum patient
Severe sunburn when exposed to sun, multiple freckles on skin, painfully sensitive and bloodshot eyes, multiple cancerous eruptions on skin, increased risk of melanoma and squamous cell carcinoma
When does base excision repair occur?
Throughout cell cycle
What is base excision repair important for
Repair of spontaneous deamination
What are the enzymes involved in base excision repair?
DNA glycosylase, AP-endonuclease (cleaves 5’ end), Lyase (cleaves 3’ end), DNA Polymerase beta fills gap, Ligase seals
When does mismatch repair occur?
G2 phase of cell cycle
What syndrome does a defect in Mismatch Repair lead to?
Lynch syndrome (HNPCC)
What condition results from defective non-homologous end joining (double-stranded break repair)?
Ataxia telangiectasia; Fanconi syndrome
Which prokaryotic amino acid stimulates neutrophil chemotaxis?
N-formylmethionine (fMet)
Which part of a gene do RNA Polymerase II and multiple transcription factors sit
Promoter (TATA box, CAAT)
Name the polymerases that synthesize rRNA, mRNA and tRNA, respectively
RNA Polymerase I, II, III
Why is alpha-amanitin (found in Amanita philloides mushroom) toxic?
Inhibits RNA Polymerase II. Leads to severe hepatotoxicity
Which molecule does Rifampin target in bacteria?
RNA Polymerase
Which molecule does Actinomycin D target?
RNA Polymerase in both prokaryotes and eukaryotes
Which RNA processes occur in the nucleus?
Transcription
7-methylguanosine cap addition to 5’ end
Polyadenylation to 3’ end
Splicing of introns
Which RNA process occurs in cytoplasm prior to translation?
mRNA quality control at P-bodies (contain exonucleases, decapping enzymes and microRNAS; storage for future translation)
What are anti-Smith antibodies? Why are they important?
Autoantibodies against spliceosomal snRNPs. Highly specific for SLE
Which disorder are Anti-U1 RNP antibodies associated with
Mixed connective tissue disease
What is the function of microRNAs
Control protein expression by degrading or inactivating mRNA (decrease translation into protein)
Which end of a tRNA is anticodon located on?
3’ end, CCA
What is the T arm of a tRNA
Ribothymidine, pseudouridine, cytidine sequence that binds ribosome
What is the D-arm of tRNA
Dihydrouridine residues necessary for tRNA recogition by correct amino-acyl tRNA synthetase
Which process initiates protein synthesis (ribosome binding)?
GTP hydrolysis
Which site of ribosome does initiation (methionine loading) take place?
P site
Describe elongation
Incoming aminoacyl-tRNA are in A site, P site accommodates growing peptide, E site holds empty tRNA to exit
What is the function of a chaperone protein
Maintain protein folding
What is the shortest phase of the cell cycle?
M (mitotic) phase
Which phases of the cell cycle are of variable duration?
G1 and G0
Explain how the cell cycle transitions each phase
CDKs are signaling proteins that must be activated by phase-specific cyclins at each phase. After forming a complex, Cyclin-CDKs phosphorylate other proteins
Describe the function of p53
Tumor suppressor gene. Induces p21 to inhibit CDK. Prevents transition from G1 to S if there are errors
Explain how Rb functions
Hypophosphorylated (activated) by p21. Binds and inactivates transcription factor E2F to inhibit progression to S phase.
Which cells are permanent and which phase of the cell cycle are they in?
Neurons, cardiac and skeletal muscle, RBCs. G0
Which cells are stable (quiescent) and which phase are they in?
Hepatocytes and lymphocytes; enter G1 from G0 when stimulated
Which cells are labile and which phase are they in?
Bone marrow, gut, skin, hair and germ cells. Never go to G0, divid rapidly with short G1. most affected by chemotherapy
What is the function of smooth endoplasmic reticulum?
Steroid synthesis and detox from drugs and poisons
Which cells would be rich in SER
Hepatocytes, adrenal cortex cells and gonadal cells
Which protein modification takes place on proteins designated to lysosome?
Mannose-6-phosphate addition
Which amino acid undergoes modification of N-oligosaccharides in the golgi?
Asparagine
Which amino acids under go addition of O-oligosaccharides in golgi?
Serine and Threonine
Which enzyme is mutated in I-Cell disease?
N-acetylglucosaminyl-1-phosphotransferase (NGAPT)
What is the etiology of I-cell disease?
Golgi cannot phosphorylate mannose residues, so enzymes designated for lysosome are secreted instead
What are the clinical features of I-cell disease?
Clouded corneas, coarse facial features, restricted joint movement, high levels of plasma lysosomal enzymes. Death in childhood
Dysfunction of which enzyme leads to protein accumulation in cytosol?
SRP (traffics proteins from ribosome to RER)
What is the function of COPI?
Retrograde vesicular transport from trans golgi to cis golgi and cis-golgi to ER
What is the most common mutation in Osteogenesis Imperfecta?
COL1A1/2, Type I Collagen
Clinical presentation of Osteogenesis imperfecta
multiple fractures, blue sclera, hearing loss, tooth decay
Defect in which collagen cause Vascular type Ehler Danlos syndrome
Type 3 collagen deficiency
Deficiency in which collagen type causes classical type (joint and skin) Ehler Danlos syndrome
Type V collagen