Hi, I need to find the dimension and size of protein using PyMOL ,is there any one who could help me in this regard?

Gwangju Institute of Science and Technology

Anu Manhas ok Thank you so much. Let me check this.

Annemarie Honegger

University of Zurich

You can use the"boundingBox" script ( https://pymolwiki.org/index.php/Bounding_Box ) or "DrawBounding box" script ( https://pymolwiki.org/index.php/DrawBoundingBox ) to determine the dimension.

The "split_chains" script ( https://pymolwiki.org/index.php/Split_chains )will put the different chains into separate objects

4 Recommendations

Annemarie Honegger

University of Zurich

Martin Klvana

Yoshinobu Ishikawa

Shonan University of Medical Sciences

Anuraj Nayarisseri

EMINENT BIOSCIENCES

Parisa Ziarati

Formerly Academic member in Pharmaceutical Faculty & honorary researcher in

Anu Manhas

Pandit Deendayal Energy University

In PyMOL

Click on Wizard -> Measurement -> Measurement mode (Distances) -> Click on first atom* -> Click on second atom*.

*Select atoms accordingly

Regards

Anu Manhas

1 Recommendation

Annemarie Honegger

University of Zurich

The "split_chains" script ( https://pymolwiki.org/index.php/Split_chains )will put the different chains into separate objects

4 Recommendations

Shaban Ahmad

Jamia Millia Islamia

Dear Basit Sharif ,

Click on Wizard -> Measurement -> Measurement mode (Distances) -> Click on first atom* -> Click on second atom*.

or you can select atoms as your wish.

Gwangju Institute of Science and Technology

Dear Anu Manhas & Shaban Ahmad thank you for your answers but this method is just to find the distance between two atoms in a molecule . I want to calculate the whole size of protein and its dimensions.

Gwangju Institute of Science and Technology

Dear Annemarie Honegger Thank you for your answer. Let me check this method. Than I will tell whether it worked or not. It looks quite complicated and firstly I need to understand it properly.

Anu Manhas

Pandit Deendayal Energy University

If you will select the two farthest atoms (from the opposite side of the protein chain), it will give you the distance, i.e., the size of the protein.

or You can follow the link: https://pymolwiki.org/index.php/Draw_Protein_Dimensions

This script will draw the dimensions of a protein-based on an Inertia Axis Aligned Bounding Box (IABB).

Regards

Anu Manhas

Gwangju Institute of Science and Technology

Anu Manhas ok Thank you so much. Let me check this.

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