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iCn3D Skill: Mutations

Last updated

Jan 9, 2025
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- iCn3D Skill: Creating and Saving Selections
- iCn3D Skill: Selection through Sequence and Annotations

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Analysis: Mutation

A simple way to change 1 amino acid to another

PDB ID: 1xww

Description: human B-form low molecular weight protein tyrosine phosphatase (has single domain) with bound sulfate (SO4) and glycerol (GOL)

Instructions

File, Retrieve by ID, MMDB
Analysis, Mutation
Input the desired mutation C12S this way (1XWW_A_12_S) where A is the A chain, 12 is the aa # and S is the new mutated amino acid residue Ser. Note that C12 is the wild-type active site nucleophile in phosphatases and changing it to Ser will effectively abolish phosphatase activity. To view you could use 3 different methods. We'll use one.
3D with scap: toggle back and forth between structures using the key “a”
Interaction: shows the mutation in 3D and change in interactions
PDB: shows structure and exports a PDB file within 10 A of the mutation
Choose Interactions and say wow!
Color, Atom
Style, Background, White
Toggle back and forth between the structures with the letter “a”
File, Share Link, Lifelong Short Link

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