- Course overview
- Search within this course
- What is PDBe?
- Why do we need PDBe?
- How to access and navigate PDBe?
- How to search the PDB using PDBe?
- Guided exercise 1: Giardia lamlia
- Exercise 1: How do I search PDB for Giardia lamblia?
- Exercise 1: How many proteins are there in the PDB for Giardia lamblia?
- Exercise 1: How many of these proteins function as enzymes?
- Exercise 1: Which part of the cell do these proteins come from?
- Exercise 1: What type of ligands do they interact with?
- Guided exercise 2: Glycolysis process
- Exercise 2: How do I search the PDB for enzymes involved in glycolysis?
- Exercise 2: Are all the 10 enzyme structures that are involved in the glycolytic pathway present in the PDB?
- Exercise 2: What part of the cell do the enzymes belong to?
- Exercise 2: How do I identify the different classes of enzymes (e.g. hydrolase) that participate in glycolysis?
- Exercise 2: How many of them display nucleotide binding activity?
- Exercise 2: Which protein family/families does the enzyme Glucokinase belong to?
- Exercise 2: How do I identify the best representative structure from each of the protein families?
- Exploring a PDB entry
- Summary
- Test your knowledge
- Your feedback
- Learn more
- Get help and support on PDBe
- References
Visualize macromolecular structures
PDBe can be used to visualize atomistic models of macromolecular structures (proteins/DNA/RNA) derived by various experimental methods, e.g. X-ray crystallography, nuclear magnetic resonance (NMR) and electron microscopy (EM).
An example of an atomistic model is shown below in Figure 3.
![An example of an atomistic model](https://www.ebi.ac.uk/training/online/courses/pdbe-searching-pdb/wp-content/uploads/sites/102/2024/02/Searching_PDB_4wh0_1.png)