CPK: Difference between revisions

From Proteopedia
Jump to navigationJump to search
Student (talk | contribs)
students
33,923 edits
New page: ==This is a placeholder== This is a placeholder text to help you get started in placing a Jmol applet on your page. At any time, click "Show Preview" at the bottom of this page to see how...
 
Angel Herraez (talk | contribs)
Editor, Macro, Print3D, Tester
1,212 edits
No edit summary
 
(33 intermediate revisions by 3 users not shown)
Line 1: Line 1:
==This is a placeholder==
<StructureSection load='' size='350' side='right' caption='[[Selenocysteine]], colored by element using the CPK color scheme of Jmol: {{Template:ColorKey_Element_C}} {{Template:ColorKey_Element_H}} {{Template:ColorKey_Element_O}} {{Template:ColorKey_Element_N}} {{Template:ColorKey_Element_Se}}' scene='CPK/Selenocysteine_spacefilled/1'>
This is a placeholder text to help you get started in
"CPK" stands for Corey-Pauling-Koltun. It commonly refers to spacefilling physical molecular models developed by Corey, Pauling and Koltun<ref>Corey, RB and Pauling L (1953), Molecular models of amino acids, peptides and proteins. Rev. Sci. Instr. 24: 621-627.</ref><ref>PMID: 4158989</ref> in the 1950's and 1960's. ''CPK'' also refers to the color scheme for the elements that they adopted.
placing a Jmol applet on your page. At any time, click
"Show Preview" at the bottom of this page to see how it goes.


Replace the PDB id (use lowercase!) after the STRUCTURE_ and after PDB= to load
==CPK Color Scheme for the Elements==
and display another structure.
In this color scheme, <font color="grey">'''carbon is gray or black'''</font>, <font color="red">'''oxygen is red'''</font>, <font color="blue">'''nitrogen is blue'''</font>, <font color="#c0c000">'''sulfur is yellow'''</font>, and hydrogen is white.
<scene name='CPK/Cpk/1'>TextToBeDisplayed</scene>
 
{{STRUCTURE_3cin |  PDB=3cin  |  SCENE= }}
As an example, to the right you see '''[[selenocysteine]]''' and then you can change its rendering with the green links below:
*<scene name='CPK/Selenocysteine_ball_and_stick/2'>Ball and Stick</scene>
*<scene name='CPK/Selenocysteine_sticks/1'>Sticks</scene>
*<scene name='CPK/Selenocysteine_spacefilled/1'>Spacefilling</scene>
 
Another example, '''heme C''':
* <scene name='35/355976/Heme_c_ball_and_stick/1'>Ball and Stick</scene>
* <scene name='35/355976/Heme_c_sticks/1'>Sticks</scene>
* <scene name='35/355976/Heme_c_spacefill/1'>Spacefilling</scene>
 
==CPK in Jmol==
The command "color cpk" applies this color scheme in popular molecular visualization programs such as [[RasMol]], [[Chime]], and [[Jmol]]. The complete set of element colors used by Jmol is available at [http://jmol.sourceforge.net/jscolors/ Jmol Colors], where the colors used by RasMol are compared with those used by Jmol. The CPK color scheme for the elements is also incorporated into a standard set of color schemes for macromolecules, [[DRuMS]].
 
==CPK in Proteopedia==
A color key such as the one below can be inserted into Proteopedia using existing templates (see [[Help:Color Keys]]):
<br>
{{Template:ColorKey_Element_C}}
{{Template:ColorKey_Element_H}}
{{Template:ColorKey_Element_O}}
{{Template:ColorKey_Element_N}}
{{Template:ColorKey_Element_P}}
{{Template:ColorKey_Element_S}}
{{Template:ColorKey_Element_Se}}
{{Template:ColorKey_Element_Fe}}
 
 
 
</StructureSection>
 
==References==
<references />

Latest revision as of 17:36, 22 October 2020

Selenocysteine, colored by element using the CPK color scheme of Jmol: C H O N Se

Drag the structure with the mouse to rotate

References

Proteopedia Page Contributors and Editors (what is this?)

Eric Martz, Angel Herraez, Eran Hodis

Retrieved from "https://proteopedia.org/index.php?title=CPK&oldid=3307529"