Authors

Aeliya Syed, John Winfer, Leon Thistle, Paul Ekers, Ngan Nguyen, Ondrej Strnad, David Goodsell, Ivan Viola, Deng Luo.

Description

This is a WISE [1] internship project aimed at building the atomistic model for bacteriophage T4. The most up-to-date structural data and knowledge are first collected and then fed into the in-house modeling tool called MesoCraft. Most proteins' structures are collected from the PDB database. When this is not available, AlphaFold2 and SWISS-MODEL are the main tools used to perform the prediction of the protein's structure from its amino acid sequence. Please refer to the "YouTube - Bacteriophage T4 Atomistic Model Structural Biology Background" link below for more information.

The above banner image shows the isometric mutant type T4, whose head capsid is a perfect icosahedron with the triangulation number T=13. Its model can be downloaded in the "Isometric_mutant_type_T4_v3.zip" link below. The model is released in MesoCraft .model format. A .cif format will be released later. The wild type T4 is being constructed, with T=13 forming the top and bottom cap and T=20 forming the middle section.

The model is subject to update when new insights are found. Please address correspondence to Deng Luo.

1. WISE internship program: https://tks.kaust.edu.sa/beyond-the-classroom/secondary/wise

Downloads & Resources

• Isometric_mutant_type_T4_v3.zip
• YouTube - Bacteriophage T4 Atomistic Model Structural Biology Background
• Atomistic model of an Escherichia virus T4 bacteriophage
• Video - Bacteriophage T4 Atomistic Model Structure
• WISE Presentation Slides: Nanovis 3D Modelling Internship

How to cite & Licence

@misc{NanovisG51:online, author = {John Winfer, Aeliya Syed, Paul Ekers, Leon Thistle, Ngan Nguyen, Ondrej Strnad, David Goodsell, Ivan Viola, Deng Luo}, title = {T4 model}, howpublished = {\url{https://www.nanovis.org/T4-model.html}}, month = {}, year = {}, note = {(Accessed on 09/07/2021)} }