Use PDB data to their full extent: Understanding PDBx/mmCIF
Virtual Crash Course | May 3, 2023
Understand the basics of PDBx/mmCIF data dictionary and file format that underpin archiving of more than 200,000 experimentally determined three-dimensional biostructures in the PDB. Learn about software tools for generating and working with PDBx/mmCIF files, and programmatic access for harvesting PDB data.
After watching the videos featured in this course, you will be able to:
- Understand PDBx/mmCIF format as data model
- Know software tools for generating, editing, and visualizing PDBx/mmCIF files
- Understand PDBx/mmCIF dictionary extensions, including ModelCIF for computed structure models (CSM) from AI/ML
- Parse data from PDBx/mmCIF files for your research
Additional materials for this course are available:
- Presentation Slides
- PDBx/mmCIF Dictionary website
- Beginner’s Guide to PDB Structures and the PDBx/mmCIF Format
Click on the image below to play the video.
![](https://cdn.rcsb.org/pdb101/train/mmcif/video1.png)
Introduction
Stephen K. Burley
Director, RCSB Protein Data Bank
![](https://cdn.rcsb.org/pdb101/train/mmcif/video2.png)
Introduction and course objectives
Gregg Crichlow
Biocurator, RCSB PDB, Rutgers University
![](https://cdn.rcsb.org/pdb101/train/mmcif/video3.png)
PDBx/mmCIF format - Not your parents’ legacy PDB format
Ezra Peisach
Scientific Software Developer/PDBx mmCIF Dictionary Manager, RCSB PDB, Rutgers University
![](https://cdn.rcsb.org/pdb101/train/mmcif/video4.png)
PDBx/mmCIF data files - Lifting the lid off the black box
Brian Hudson
Biocurator, RCSB PDB, Rutgers University
![](https://cdn.rcsb.org/pdb101/train/mmcif/video5.png)
Programmatic data access and analysis using PDBx/mmCIF files, Part 1
Irina Persikova
Biocuration Lead Deputy, RCSB PDB, Rutgers University
![](https://cdn.rcsb.org/pdb101/train/mmcif/video6.png)
Programmatic data access and analysis using PDBx/mmCIF files, Part 2
Chenghua Shao
Scientific Software Developer/KPI Evaluator, RCSB PDB, Rutgers University