Difference between revisions of "Jmol-Application/C3/Display-Lone-Pair-of-Electrons/English"

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(Created page with " {|border=1 |- ! align=center | Visual Cue ! align=center | Narration |- || '''Slide Number 1''' '''Title Slide''' || Welcome to this Spoken Tutorial on '''Display Lone Pai...")
 
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−
 
  
 
{|border=1
 
{|border=1
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'''Learning Objectives'''
 
'''Learning Objectives'''
 
|| In this tutorial, we will learn to,
 
|| In this tutorial, we will learn to,
−
* Display '''lone''' '''pair''' of electrons on an atom using script commands.
+
* Display '''lone pair''' of electrons on an atom using script commands.
 
|-
 
|-
 
|| '''Slide Number 3'''
 
|| '''Slide Number 3'''
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'''https://spoken-tutorial.org'''
 
'''https://spoken-tutorial.org'''
 
|| To follow this tutorial,
 
|| To follow this tutorial,
−
* Learner must be familiar with basic operations on '''Jmol''' interface.
+
* learner must be familiar with basic operations on '''Jmol''' interface.
 
* Spoken tutorials on '''Jmol Application''' are available at the following website.
 
* Spoken tutorials on '''Jmol Application''' are available at the following website.
 
|-
 
|-
 
|| Cursor on '''Jmol''' interface.
 
|| Cursor on '''Jmol''' interface.
  
−
Click on the '''File''' menu and select '''Get M'''ol option.
+
Click on the '''File''' menu and select '''Get Mol''' option.
  
−
In the input box, type '''water. '''
+
In the input box, type '''water'''.
  
 
Click '''OK'''.
 
Click '''OK'''.
 
|| Open the '''Jmol''' interface.  
 
|| Open the '''Jmol''' interface.  
  
−
Click on the '''File''' menu and select '''Get Mol''' option.
+
Click on the '''File''' menu and select '''Get MOL''' option.
  
−
In the input box, type '''water''' and Click '''OK.'''
+
In the input box, type '''water''' and Click '''OK'''.
 
|-
 
|-
 
|| Cursor on the panel.
 
|| Cursor on the panel.
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|-
 
|-
 
|| Cursor on the panel.
 
|| Cursor on the panel.
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|| Using the script commands we can represent '''lone''' pair of '''electrons''' as '''tear'''-'''drop''' shaped '''lobes'''.
+
|| Using the script commands we can represent '''lone''' pair of '''electrons''' as '''tear-drop''' shaped '''lobes'''.
 
|-
 
|-
 
|| Click on the '''File''' menu and select the Console option.
 
|| Click on the '''File''' menu and select the Console option.
−
|| To open the console click the '''File''' menu.
+
|| To open the '''console''' click the '''File''' menu.
  
 
Select '''Console''' option.
 
Select '''Console''' option.
 
|-
 
|-
 
|| Cursor on the panel.
 
|| Cursor on the panel.
−
|| Script console opens as a pop-up window.
+
|| '''Script console''' opens as a pop-up window.
 
|-
 
|-
 
|| Cursor on the console.
 
|| Cursor on the console.
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|| Edit the command and change, '''translucent white''' to '''yellow '''and press '''Enter'''.
 
|| Edit the command and change, '''translucent white''' to '''yellow '''and press '''Enter'''.
 
|-
 
|-
−
||  
+
||Press the up arrow on the keyboard.
−
Press the up arrow on the keyboard.
+
  
 
At the end of the command line, change '''lpa '''to '''lpb'''.
 
At the end of the command line, change '''lpa '''to '''lpb'''.
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|-
 
|-
 
|| Cursor on the panel.
 
|| Cursor on the panel.
−
|| I have loaded the '''3D''' structure of '''ammonia''' using '''GetMol'''.
+
|| I have loaded the '''3D''' structure of '''ammonia''' using '''GetMOL'''.
  
−
To open the console click the '''File''' menu.
+
To open the '''console''' click the '''File''' menu.
  
 
Select '''Console''' option.
 
Select '''Console''' option.
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|| '''Cursor on the console'''
 
|| '''Cursor on the console'''
  
−
'''select nitrogen;lcaocartoon color yellow create lpa'''
+
'''select nitrogen;lcaocartoon color yellow create lpa'''.
−
|| Here is the command line for displaying a '''lone''' '''pair''' on nitrogen in '''ammonia'''.
+
 
 +
|| Here is the command line for displaying a '''lone pair''' of electrons on nitrogen in '''ammonia'''.
 
|-
 
|-
 
|| '''Slide Number 5'''
 
|| '''Slide Number 5'''
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In this tutorial, we have learned to,
 
In this tutorial, we have learned to,
−
* Display '''lone''' '''pair''' of electrons on an atom using script commands.
+
* Display '''lone pair''' of electrons on an atom using script commands.
 
|-
 
|-
 
|| '''Slide Number 6'''
 
|| '''Slide Number 6'''
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'''Assignment'''
 
'''Assignment'''
 
|| As an assignment,
 
|| As an assignment,
−
* Display a '''lone''' '''pair''' of electrons on the phosphorus atom in the phosphine model.
+
* Display a '''lone pair''' of electrons on the phosphorus atom in the phosphine model.
 
|-
 
|-
 
|| '''Slide Number 7'''
 
|| '''Slide Number 7'''

Revision as of 13:15, 26 March 2025

Visual Cue Narration
Slide Number 1

Title Slide

Welcome to this Spoken Tutorial on Display Lone Pair of Electrons in Jmol.
Slide Number 2

Learning Objectives

In this tutorial, we will learn to,
  • Display lone pair of electrons on an atom using script commands.
Slide Number 3

System Requirement

Here I am using,
  • Ubuntu Linux OS version 22.04
  • Jmol version 16.2.35
  • Java version 11.0.25
Slide Number 4

Pre-requisites

https://spoken-tutorial.org

To follow this tutorial,
  • learner must be familiar with basic operations on Jmol interface.
  • Spoken tutorials on Jmol Application are available at the following website.
Cursor on Jmol interface.

Click on the File menu and select Get Mol option.

In the input box, type water.

Click OK.

Open the Jmol interface.

Click on the File menu and select Get MOL option.

In the input box, type water and Click OK.

Cursor on the panel.

Hold Ctrl and Alt keys

3D structure of water is seen on the panel.

Hold Ctrl and Alt keys to move the model on the screen.

Cursor on the panel. Water has two lone pairs of electrons on the Oxygen atom.

They are also referred to as an unshared pair of valence electrons.

Cursor on the panel. Using the script commands we can represent lone pair of electrons as tear-drop shaped lobes.
Click on the File menu and select the Console option. To open the console click the File menu.

Select Console option.

Cursor on the panel. Script console opens as a pop-up window.
Cursor on the console. Here we can write commands to draw the lone pair of electrons.
At the prompt, Type the following, select oxygen;lcaocartoon color translucent white create lpa

Press Enter.

At the prompt, Type the command:

select oxygen;lcaocartoon color translucent white create lpa

This command will create a translucent white colored lobe on the oxygen atom.

Press Enter.

Cursor on the panel. The first lobe is seen on the oxygen atom on the panel.

You can change the color in the command according to your preference.

Press up arrow key on the keyboard. I will change the color of the lobes to yellow.

Press the up arrow key to get the previous command at the prompt.

select oxygen;lcaocartoon color yellow create lpa Edit the command and change, translucent white to yellow and press Enter.
Press the up arrow on the keyboard.

At the end of the command line, change lpa to lpb.

Press Enter.

For the second lobe:

Press the up arrow key on the keyboard to get the previous command at the prompt.

Edit the command.

At the end of the command line, change lpa to lpb.

Press Enter.

Cursor on the panel. Now we can see two lobes representing two lone pairs of electrons on the panel.
Cursor on the panel. I have loaded the 3D structure of ammonia using GetMOL.

To open the console click the File menu.

Select Console option.

Cursor on the console

select nitrogen;lcaocartoon color yellow create lpa.

Here is the command line for displaying a lone pair of electrons on nitrogen in ammonia.
Slide Number 5

Summary

Let us summarize.

In this tutorial, we have learned to,

  • Display lone pair of electrons on an atom using script commands.
Slide Number 6

Assignment

As an assignment,
  • Display a lone pair of electrons on the phosphorus atom in the phosphine model.
Slide Number 7

About Spoken Tutorial Project

This video summarizes the Spoken Tutorial project.

Please download and watch it.

Slide Number 8

Spoken tutorial workshops

We conduct workshops and give certificates.

For more details, please contact us.

Slide Number 9

Forum

Please post your timed queries in this forum.
Slide Number 10

Acknowledgement

The Spoken Tutorial project was established at IIT Bombay by the Ministry of Education Govt of India.
This tutorial is contributed by Snehalatha Kaliappan and Madhuri Ganapathi from IIT Bombay.

Thank you for joining.

Contributors and Content Editors

Madhurig, Snehalathak

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