Proteopedia talk:Wishlist
From Proteopedia
| Line 467: | Line 467: | ||
=== More tools in "selections" tab === | === More tools in "selections" tab === | ||
| - | Add < | + | Add <jmol><jmolButton><text>restrict selection to</text></jmolButton></jmol> to do "select selected and *". |
Add <code>clear form</code> to set all text boxes to "all" '''Done''' [[User:Jaime Prilusky|Jaime Prilusky]] 04:15, 29 October 2020 (UTC) | Add <code>clear form</code> to set all text boxes to "all" '''Done''' [[User:Jaime Prilusky|Jaime Prilusky]] 04:15, 29 October 2020 (UTC) | ||
Revision as of 04:28, 29 October 2020
Contents |
To-Do
Some redesign of the options in the SAT:
List of items in "selections" tab of the SAT
| heading | current submenu |
current command |
proposal submenu |
proposal command |
|
| all | all | all | all | ||
| protein | Protein | ||||
| all protein | protein | all protein | |||
| alpha carbon | alpha | alpha carbon | |||
| backbone/mainchain | backbone | backbone/mainchain | protein and backbone | ||
| helix | helix | sidechain | protein and sidechain | ||
| sheet | sheet | helix | |||
| sidechain | sidechain | sheet | |||
| turn | turn | turn | |||
| non-protein | Nucleic acid | ||||
| base | base | RNA | rna | ||
| carbohydrate | carbohydrate | DNA | dna | ||
| dna | dna | bases | base | ||
| hetero | hetero | purines | purine | ||
| ions | ions | pyrimidines | pyrimidine | ||
| ligand | ligand | backbone/mainchain | nucleic and backbone | ||
| nucleic | nucleic | ||||
| rna | rna | Other | |||
| solvent | solvent | all ligands | ligand | ||
| water | water | solvent/water | solvent | ||
| carbohydrate | carbohydrate | ||||
| protein residues | all hetero | hetero | |||
| acidic/negative | acidic | ions | ions | ||
| acyclic | acyclic | ||||
| aliphatic | aliphatic | ||||
| all residues | amino | Protein residues | |||
| aromatic | aromatic | Amino acid properties | maybe "by amino acid property" | ||
| basic/positive | basic | acidic/negative | acidic | ||
| buried | buried | basic/positive | basic | ||
| charged | charged | charged | charged | ||
| cyclic | cyclic | polar | polar | ||
| hydrophobic | hydrophobic | hydrophobic | hydrophobic | ||
| large | large | aromatic | aromatic | ||
| medium | medium | ||||
| neutral | neutral | ||||
| polar | polar | ||||
| small | small | ||||
| surface | surface | ||||
| nucleotides | Nucleic residues | but we can remove this altogether | |||
| dA | dA | dA | dA | ||
| A | A | A | A | ||
| dC | dC | dC | dC | ||
| C | C | C | C | ||
| dG | dG | dG | dG | ||
| G | G | G | G | ||
| dI | dI | dI | dI | ||
| I | I | I | I | ||
| purine | purine | dT | dT | ||
| pyrimidine | pyrimidine | T | T | ||
| dT | dT | dU | dU | ||
| T | T | U | U | ||
| dU | dU | ||||
| U | U | ||||
More tools in "selections" tab
Add to do "select selected and *".
Add clear form to set all text boxes to "all" Done Jaime Prilusky 04:15, 29 October 2020 (UTC)
More tools in "representations" tab
Add clear form to uncheck all check boxes (next to hide selection button?) Done Jaime Prilusky 04:15, 29 October 2020 (UTC)
Combine the following items in a new area between the two existing ones: |
center selected atoms |
center visible atoms |
zshade on/off |
and the existing slab from above.
Suggestions for under the Jmol panel
Display updated number of selected atoms on SAT. Done Jaime Prilusky 04:15, 29 October 2020 (UTC) Either: number of atoms selected _______ Or: after "Show Selected with Halos", just show the number in parentheses as done in the Jmol right-click menu Suggestion: "___ atoms currently selected", right after "Select Atoms ALL NONE" or inside the box under "currently loaded file" --Angel_Herraez 13:39, 28 October 2020 (UTC)
Karsten's comments
Thanks for posting this here, Angel. I vote for removing the Nucleic residues from the group selections because it is redundant. We could consolidate the "protein" and the "amino acid properties" into a single category. I did not do this because then the next category is not visible at first glance. --Karsten Theis 13:04, 28 October 2020 (UTC)
