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Fundamentals of Biochemistry IV - Special Topics

In Volume V, we present two types of assessments for use by instructors and students. Literature-based Guided Assessments (LGAs) contain problems derived from the research literature. They are designed to help students read and understand the chosen research paper. The questions in the LGAs integrate many areas of biochemistry represented across many chapters in a biochemistry textbook. Molecular modeling tutorials and problems are provided to help students create their own, web-based molecu

BiochemistryBiology
Author
Henry Jakubowski and Patricia Flatt
Publisher
LibreTexts
Source
LibreTexts
License
CC BY
Language
EN
Category
Basic Sciences
Read online Download PDF (open licence)
Contents· 56 sections
  1. Chapter 1 - Problems
  2. iCn3D for Biomolecular Visualization Learning Themes and Goals
  3. BioMolViz Framework
  4. BioMolViz Theme: Alternate Renderings (AR)
  5. BioMolViz Theme: Atomic Geometry (AG)
  6. BioMolViz Theme: Construction and Annotation (CA)
  7. BioMolViz Theme: Ligands and Modifications (LM) ✔
  8. BioMolViz Theme: Macromolecular Assemblies (MA)
  9. BioMolViz Theme: Macromolecular Building Blocks (MB) ✔
  10. BioMolViz Theme: Molecular Dynamics (MD)
  11. BioMolViz Theme: Molecular Interactions (MI)
  12. BioMolViz Theme: Structural Model Skepticism (SK)
  13. BioMolViz Theme: StructureFunction Relationship (SF)
  14. BioMolViz Theme: Symmetry Asymmetry Recognition (SA)
  15. BioMolViz Theme: Topology and Connectivity (TC)
  16. Biomolviz- Constructing iCn3D Models to Target Biomolecular Visualization Skills
  17. iCn3D Molecular Modeling Tutorials
  18. iCn3D Basics: Analysis Menu
  19. iCn3D Basics: Mouse Commands
  20. iCn3D Basics: Selecting and Viewing with a mouse
  21. iCn3D Basics: Style and Color
  22. iCn3D Basics: File Types
  23. iCn3D Basics: Saving Files
  24. iCn3D Intro Tutorial A: Modeling a Short Peptide in a Protein
  25. iCn3D Intro Tutorial B: Rendering a Protein
  26. iCn3D Intro Tutorial C: Finding Pockets in Proteins
  27. iCn3D Intro Tutorial D: Modeling Psychoactive Drugs in Target Proteins
  28. iCn3D Skill: Aligning two structures
  29. iCn3D Skill: Analysis of Noncovalent Interactions
  30. iCn3D Skill: Creating and Saving Selections
  31. iCn3D Skill: Mutations
  32. iCn3D Skill: Selection through Sequence and Annotations
  33. iCn3D Skill: Showing a Protein-Protein Interface
  34. iCn3D Skill: Alternative Rendering and Saving Files
  35. iCn3D Skill: Displays surface of a protein - Superoxide Dismutase
  36. iCn3D Tutorial Question: Information and Visualizaiton Transduction - 1D to 3D Structural Function Emergence
  37. iCn3D Tutorial Question: Intermediate Problem - Cyclooxygenase II
  38. iCn3D Tutorial: Asymmetric Unit Unit cell and Molecular Assemblies
  39. iCn3D Tutorial: Binding interactions of SARS-Cov-2 Spike receptor domain with ACE2
  40. iCn3D Tutorial: Overlay many ACE2 receptor binding domain analogous to SARS-Co2 RBD using Blast
  41. iCn3D Tutorial: Protein Kinase B (AKT)
  42. Literature Based Guided Assessments (LGAs) - Traditional
  43. A Glycan-Receptor Complex: Structural and Binding Analyses
  44. Carbohydrates and Glycans 1: Synthesis of a glycan hairpin
  45. Gluten and Celiac Disease
  46. Voltage-Gated Sodium Channel
  47. Voltage-Gated Sodium Channel - Questions
  48. Literature Based Guided Assessments (LGAs): Global Challenges
  49. 1. Global Challenges: An Introduction
  50. Addiction: Alcohol Use Disorder - PART 2. Effect of Allosteric Modulators on the GABAA Receptor (Master)
  51. Addiction: Alcohol Use Disorder - PART 3. Ethanol and the GABAA Receptor (Master)
  52. Addiction: Alcohol Use Disorder (AUD)- PART 1. Introduction to AUD and the GABAA Receptor (Master)
  53. Carbon Capture Using Carbonic Anhydrase
  54. Information Integrity - Data and Analysis
  55. Information Integrity: Visual Images
  56. Trauma and Health