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Guide to Understanding PDB Data: Carbohydrates

06/15 PDB101 News

Figure 2. Examples of carbohydrates in the PDB: the coronavirus spike protein (left; 7kip) with many sites of glycosylation in gray; a fragment of heparin (center; 3irl), shown with a ball-and-stick representation; and cholera toxin bound to a small fragment of O-type blood glycans (right, 5elb), with the glycans shown using SNFG representation. <a href="https://pdb101.rcsb.org/learn/guide-to-understanding-pdb-data/exploring-carbohydrates-in-the-pdb-archive">More on carbohydrates at PDB-101.</a>Figure 2. Examples of carbohydrates in the PDB: the coronavirus spike protein (left; 7kip) with many sites of glycosylation in gray; a fragment of heparin (center; 3irl), shown with a ball-and-stick representation; and cholera toxin bound to a small fragment of O-type blood glycans (right, 5elb), with the glycans shown using SNFG representation. More on carbohydrates at PDB-101.

The constantly-growing PDB is a reflection of the research that is happening in laboratories across the world. This can make it both exciting and challenging to use the database in research and education.

PDB-101's Guide to Understanding PDB Data was created to help users navigate through the contents of the archive without having a detailed background in structural biology.

Topics cover biological assemblies, molecular graphics programs, R-value and R-free, and more.

A new chapter has been added to help users examine the carbohydrates are represented in the PDB archive. Topics in this article include:

  • General Overview
  • Importance of Carbohydrates in Biology
  • Representing Carbohydrates
  • How Carbohydrates are Specified in PDB Entries
  • Finding carbohydrates in the archive
  • The "Oligosaccharides" Section of the Structure Summary Page
  • Viewing Carbohydrates in Mol*

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