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USMLE - Chapter 1 - Biochemistry

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  1. Chromatin Structure Overview to Histone Deacetylation
    6Topics
  2. Nucleoside and Nucleotide Basics to Base Pairing and DNA Stability
    5Topics
  3. Introduction to Nucleotide Synthesis Inhibition to Broad-Spectrum Inhibitors and CPS Enzymes
    5Topics
  4. Purine Metabolism and Salvage Pathways to Genetic Code: Commaless and Universal
    6Topics
  5. DNA Replication Basics to Detailed Lagging Strand Synthesis
    7Topics
  6. DNA Repair: Nonhomologous End Joining to DNA Repair: Mismatch Repair
    5Topics
  7. Introns vs Exons: Basic Definitions to Visualizing Alternative Splicing and Protein Diversity
    4Topics
  8. tRNA Structure Overview to mRNA Stop Codons
    6Topics
  9. Introduction to DNA Mutations to Lac Operon Gene Expression States
    8Topics
  10. Cilia Structure: Motile Cilia and Basal Body to K+ Pump Inhibition
    6Topics
  11. Page 1 — Eukaryotic Gene Overview to Page 1 — RNA Processing: Splicing & Fate
    8Topics
  12. Osteogenesis Imperfecta: Genetic Basis to Menkes Disease
    6Topics
  13. Eukaryotic RNA Polymerases: Types to Splicing Diagram: Lariat & Mature mRNA
    7Topics
  14. Flow Cytometry: Basics and Applications to ELISA: Principle and Uses
    4Topics
  15. Protein Synthesis: Initiation Phase to Posttranslational Modifications: Chaperone Proteins
    6Topics
  16. Karyotyping: Principles and Applications to Molecular Cloning: Process and Applications
    4Topics
  17. Cell Cycle Phases and Regulation to p53 and Apoptosis Induction
    7Topics
  18. Introduction to Imprinting Disorders to Visualizing Normal vs. Mutated Chromosomes
    6Topics
  19. Rough Endoplasmic Reticulum Functions to Specific Vesicular Trafficking Proteins
    7Topics
  20. Autosomal Dominant Inheritance to Pedigree Chart Symbols
    6Topics
  21. Peroxisome Functions to Drugs Affecting Microtubules
    5Topics
  22. Polyunsaturated Essential Fatty Acids to Water-Soluble Vitamins: Deficiencies and Coenzyme Functions
    5Topics
  23. Collagen Introduction and Type I to Collagen Synthesis: Maturation and Fibril Formation
    6Topics
  24. Vitamin B7 (Biotin): Function and Deficiency to Vitamin B9 (Folate): Deficiency, Causes, and Prevention
    3Topics
  25. Elastin: Structure and Composition to PCR Cycle: Elongation and Repetition
    8Topics
  26. Ethanol Metabolism Overview to Pharmacological Interventions in Alcohol Metabolism
    5Topics
  27. CRISPR to Interpreting Southern Blot Results
    5Topics
  28. Key Metabolic Locations to Glucose Breakdown and NADPH Production
    4Topics
  29. Transgenic Strategies in Mice to Epistasis and Aneuploidy
    7Topics
  30. Pyruvate Dehydrogenase Deficiency to The TCA Cycle (Krebs Cycle)
    3Topics
  31. Genetic Terms: Dominant Negative & Linkage Disequilibrium to Conditions for Hardy-Weinberg Equilibrium
    7Topics
  32. ETC Overview to Fatty Acids in Gluconeogenesis
    9Topics
  33. Autosomal Dominant Disorders to CFTR Channel Function Diagram
    11Topics
  34. Phenylketonuria: Basic Defect and BH4 Deficiency to Alkaptonuria
    7Topics
  35. X-linked Recessive Diseases Introduction to Myotonic Dystrophy
    6Topics
  36. Fatty Acid Synthesis Overview to Medium-Chain Acyl-CoA Dehydrogenase Deficiency
    4Topics
  37. Mitochondrial Diseases: MELAS & MERRF to Trinucleotide Repeat Diseases: Fragile X & Friedreich Ataxia
    8Topics
  38. Hepatic Ketone Body Synthesis to Adipocyte Metabolism: Fed State
    4Topics
  39. Autosomal Trisomies & Down Syndrome Overview to Second Trimester Screening & NIPT
    8Topics
  40. Metabolic Fuel Use: Initial Exercise to Starvation After Day 3 and Stored Energy Depletion
    7Topics
  41. Genetic Disorders: Chromosomes 3-7 to Williams Syndrome
    6Topics
  42. Dietary Lipid Absorption and Chylomicron Entry to IDL, LDL Formation, and Uptake
    4Topics
  43. Vitamin A: Functions and Forms to Vitamin B1: Beriberi Forms
    7Topics
  44. Vitamin B2: Function and Deficiency to Vitamin B6 Deficiency Symptoms
    7Topics
  45. Vitamin B12: Name, Function, and Sources to Vitamin C: Excess and Toxicity
    7Topics
  46. Vitamin D Introduction and Function to Vitamin E Deficiency and Excess Effects
    6Topics
  47. Vitamin K Function to Marasmus: Characteristics and Visuals
    7Topics
  48. Enzyme Terminology: Kinase & Phosphorylase to Rate-Determining Enzymes: Lipid Metabolism
    7Topics
  49. ATP Production Pathways to Hexokinase vs Glucokinase: Kinetics & Regulation
    5Topics
  50. Glycolysis Net Reaction to PDC: α-Ketoglutarate & Arsenic
    7Topics
  51. Introduction to Pentose Phosphate Pathway to G6PD Deficiency: Biochemical Mechanism of Oxidative Stress
    7Topics
  52. Essential Fructosuria to Galactose Metabolism Pathway & Summary
    6Topics
  53. Sorbitol Pathway and Diabetic Complications to Acidic and Basic Amino Acids
    6Topics
  54. Urea Cycle Introduction to Hyperammonemia Treatment
    5Topics
  55. Ornithine Transcarbamylase Deficiency to Catecholamine Synthesis and Degradation
    5Topics
  56. Homocystinuria: Genetic Causes to Methylmalonic Acidemia: Deficiency & Metabolism
    6Topics
  57. Glucagon to Glycogen Disorders and Enzymes
    6Topics
  58. Introduction to Glycogen Storage Diseases to McArdle Disease (Type V)
    6Topics
  59. Lysosomal Storage Diseases Intro & Tay-Sachs to Lysosomal Storage Disease Pathway
    6Topics
  60. Key Enzymes in Lipid Transport - Part 1 to Major Apolipoproteins - Part 2
    5Topics
  61. Lipoprotein Functions: Chylomicron & VLDL to Familial Dyslipidemias: Dysbetalipoproteinemia & Hypertriglyceridemia
    5Topics
Lesson 4 of61
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Purine Metabolism and Salvage Pathways to Genetic Code: Commaless and Universal

Content August 26, 2025

Purine salvage deficiencies

#boundingbox

This diagram illustrates the purine metabolism pathway, highlighting both de novo synthesis and salvage pathways, along with points where deficiencies can occur. Key enzymes like PRPP synthetase, HPRT, and APRT are shown, as well as the formation of uric acid for excretion.

ADA: adenosine deaminase, APRT: adenine phosphoribosyltransferase, HPRT: hypoxanthine guanine phosphoribosyltransferase, XO: xanthine oxidase, SCID: severe combined immune deficiency (autosomal recessive inheritance)


Adenosine deaminase deficiency

  • ADA is required for degradation of adenosine and deoxyadenosine.
  • ADA ↓ → ↑ dATP → ↓ ribonucleotide reductase activity → ↓ DNA precursors in cells → ↓ lymphocytes.
  • One of the major causes of autosomal recessive SCID.

Lesch-Nyhan syndrome

Defective purine salvage due to absent HGPRT, which converts hypoxanthine to IMP and guanine to GMP. Compensatory ↑ in purine synthesis (↑ PRPP amidotransferase activity) → excess uric acid production. X-linked recessive.


Findings: intellectual disability, self-mutilation, aggression, hyperuricemia (red/orange “sand” [sodium urate crystals] in diaper), gout, dystonia, macrocytosis.

Treatment: allopurinol, febuxostat.


Genetic code features

Unambiguous Each codon specifies only 1 amino acid.
Degenerate/redundant Most amino acids are coded by multiple codons. Wobble—codons that differ in 3rd (“wobble”) position may code for the same tRNA/amino acid. Specific base pairing is usually required only in the first 2 nucleotide positions of mRNA codon. Exceptions: methionine (AUG) and tryptophan (UGG) encoded by only 1 codon.

Commaless, nonoverlapping Read from a fixed starting point as a continuous sequence of bases. Exceptions: some viruses.
Universal Genetic code is conserved throughout evolution. Exception in humans: mitochondria.

Topics Covered:

  • Purine Metabolism and Salvage Pathways
  • Adenosine Deaminase (ADA) Deficiency
  • Lesch-Nyhan Syndrome: Cause and Biochemistry
  • Lesch-Nyhan Syndrome: Symptoms and Management
  • Genetic Code: Unambiguous and Degenerate
  • Genetic Code: Commaless and Universal