This page is within the scope of WikiProject Molecular Biology, a collaborative effort to improve the coverage of
Molecular Biology on Wikipedia. If you would like to participate, please visit the project page, where you can join
the discussion and see a list of open tasks.Molecular BiologyWikipedia:WikiProject Molecular BiologyTemplate:WikiProject Molecular BiologyMolecular Biology articles
This page does not require a rating on Wikipedia's
content assessment scale.
Hey, everybody. I threw together this page to create a standard for creating diagrams here at the Molecular and Cellular Biology Wikiproject and the Cell Signaling Wikiproject. It's by no means final. Feel free to add anything or discuss any changes, such as colors for the cellular regions, standard symbols etc. Thanks.--
GAThrawn2219:03, 8 July 2006 (UTC)reply
I like it. I think standardizing images will make them so much more useful and understandable. I will try editing some of my older diagrams to conform.
Adenosine | Talk18:31, 10 July 2006 (UTC)reply
Suggestions
Colours - How about adjusting the colours to try and represent amount of energy contained. For instance ATP could be bright red, ADP darker red, and AMP very dark red (or something like such). I like how the number of 'arms' on the stars reduce with amount of energy, but colour is very intuitive. The same could be applied to reducing agents as well, like FADH, NAD+ and NADPH, but in blue or a different colour gradient. Even Phosphate, Pyrophosphate, and H+ could be coloured to represent energy in an archytypical way. just an idea.
Adenosine | Talk18:39, 10 July 2006 (UTC)reply
I agree, color is very intuitive. It's a great idea. If you have a scheme for colors for the important biomolecules, suggest the colors, and then we can go about implementing them. Right now these are only tentative. I modelled the symbols for the ATP, etc. from you diagrams,
Adenosine, since they are really good, and are already being used (you've set the precedence). --
GAThrawn2200:42, 11 July 2006 (UTC)reply
The problem with protein images
Main image on
thrombin. Black background, blue beta-sheets, red alpha-helices, yellow loops, cyan substrate
Secondary image on
thrombin. Whit background, all differt coloured secondary structure, legend doesn't explain sticks
Suggested example protein structure. TEV protease (white) complexed with peptide substrate (black) with active site triad residues (red)
I suggest that we try to start standardising the protein structures that are attached to pages. Here are a few starting suggestions:
White background
'Cartoon' image to make secondary structure easily visible
White protein with key features indicated in colour to make it visually clearer
Perhaps a standardised colour scheme for different features would be useful? (e.g. catalytic residues in red, or allosteric inhibitor in blue, or substrate in black)
Use Pymol ray_trace_mode, 1, since the outlines make complex structures clearer
This page is within the scope of WikiProject Molecular Biology, a collaborative effort to improve the coverage of
Molecular Biology on Wikipedia. If you would like to participate, please visit the project page, where you can join
the discussion and see a list of open tasks.Molecular BiologyWikipedia:WikiProject Molecular BiologyTemplate:WikiProject Molecular BiologyMolecular Biology articles
This page does not require a rating on Wikipedia's
content assessment scale.
Hey, everybody. I threw together this page to create a standard for creating diagrams here at the Molecular and Cellular Biology Wikiproject and the Cell Signaling Wikiproject. It's by no means final. Feel free to add anything or discuss any changes, such as colors for the cellular regions, standard symbols etc. Thanks.--
GAThrawn2219:03, 8 July 2006 (UTC)reply
I like it. I think standardizing images will make them so much more useful and understandable. I will try editing some of my older diagrams to conform.
Adenosine | Talk18:31, 10 July 2006 (UTC)reply
Suggestions
Colours - How about adjusting the colours to try and represent amount of energy contained. For instance ATP could be bright red, ADP darker red, and AMP very dark red (or something like such). I like how the number of 'arms' on the stars reduce with amount of energy, but colour is very intuitive. The same could be applied to reducing agents as well, like FADH, NAD+ and NADPH, but in blue or a different colour gradient. Even Phosphate, Pyrophosphate, and H+ could be coloured to represent energy in an archytypical way. just an idea.
Adenosine | Talk18:39, 10 July 2006 (UTC)reply
I agree, color is very intuitive. It's a great idea. If you have a scheme for colors for the important biomolecules, suggest the colors, and then we can go about implementing them. Right now these are only tentative. I modelled the symbols for the ATP, etc. from you diagrams,
Adenosine, since they are really good, and are already being used (you've set the precedence). --
GAThrawn2200:42, 11 July 2006 (UTC)reply
The problem with protein images
Main image on
thrombin. Black background, blue beta-sheets, red alpha-helices, yellow loops, cyan substrate
Secondary image on
thrombin. Whit background, all differt coloured secondary structure, legend doesn't explain sticks
Suggested example protein structure. TEV protease (white) complexed with peptide substrate (black) with active site triad residues (red)
I suggest that we try to start standardising the protein structures that are attached to pages. Here are a few starting suggestions:
White background
'Cartoon' image to make secondary structure easily visible
White protein with key features indicated in colour to make it visually clearer
Perhaps a standardised colour scheme for different features would be useful? (e.g. catalytic residues in red, or allosteric inhibitor in blue, or substrate in black)
Use Pymol ray_trace_mode, 1, since the outlines make complex structures clearer