User:Karsten Theis/BioMolViz - Revision history

Karsten Theis at 19:51, 22 October 2020

Karsten Theis — Thu, 22 Oct 2020 19:51:01 GMT

←Older revision		Revision as of 19:51, 22 October 2020
Line 3:		Line 3:
	<StructureSection load='' size='450' side='right' caption='One of the 12 overarching themes is MI, molecular interactions, illustrated here by the lambda repressor bound to the major grooves of double-stranded DNA' scene='85/857774/Molecularinteraction/1'>		<StructureSection load='' size='450' side='right' caption='One of the 12 overarching themes is MI, molecular interactions, illustrated here by the lambda repressor bound to the major grooves of double-stranded DNA' scene='85/857774/Molecularinteraction/1'>

-	For each ~~<scene name='85/857774/Testpngj/1'>~~category~~</scene>~~, the first scene is a Jmol equivalent of the BioMolViz example, and the following scenes are mostly from Proteopedia articles or sandboxes, sometimes imported as is and sometimes adapted, that illustrate the same theme.	+	For each category, the first scene is a Jmol equivalent of the BioMolViz example, and the following scenes are mostly from Proteopedia articles or sandboxes, sometimes imported as is and sometimes adapted, that illustrate the same theme.

	<scene name='85/857774/Ag/1'>AG</scene>: <scene name='85/857774/Glucose/1'>Glucose</scene>		<scene name='85/857774/Ag/1'>AG</scene>: <scene name='85/857774/Glucose/1'>Glucose</scene>

Karsten Theis at 19:44, 22 October 2020

Karsten Theis — Thu, 22 Oct 2020 19:44:36 GMT

←Older revision		Revision as of 19:44, 22 October 2020
Line 3:		Line 3:
	<StructureSection load='' size='450' side='right' caption='One of the 12 overarching themes is MI, molecular interactions, illustrated here by the lambda repressor bound to the major grooves of double-stranded DNA' scene='85/857774/Molecularinteraction/1'>		<StructureSection load='' size='450' side='right' caption='One of the 12 overarching themes is MI, molecular interactions, illustrated here by the lambda repressor bound to the major grooves of double-stranded DNA' scene='85/857774/Molecularinteraction/1'>

-	For each category, the first scene is a Jmol equivalent of the BioMolViz example, and the following scenes are mostly from Proteopedia articles or sandboxes, sometimes imported as is and sometimes adapted, that illustrate the same theme.	+	For each <scene name='85/857774/Testpngj/1'>category</scene>, the first scene is a Jmol equivalent of the BioMolViz example, and the following scenes are mostly from Proteopedia articles or sandboxes, sometimes imported as is and sometimes adapted, that illustrate the same theme.

	<scene name='85/857774/Ag/1'>AG</scene>: <scene name='85/857774/Glucose/1'>Glucose</scene>		<scene name='85/857774/Ag/1'>AG</scene>: <scene name='85/857774/Glucose/1'>Glucose</scene>

Karsten Theis at 16:21, 22 October 2020

Karsten Theis — Thu, 22 Oct 2020 16:21:24 GMT

←Older revision		Revision as of 16:21, 22 October 2020
Line 17:		Line 17:
	</jmolCheckbox>		</jmolCheckbox>
	</jmol>): <scene name='85/857774/Overall/2'>Lysozyme</scene> (and <scene name='85/857774/Overall/3'>alternate view</scene>)		</jmol>): <scene name='85/857774/Overall/2'>Lysozyme</scene> (and <scene name='85/857774/Overall/3'>alternate view</scene>)
-		+	asdf
	<scene name='85/857774/Ca/1'>CA</scene> (<jmol>		<scene name='85/857774/Ca/1'>CA</scene> (<jmol>
	<jmolLink>		<jmolLink>

Karsten Theis at 16:10, 22 October 2020

Karsten Theis — Thu, 22 Oct 2020 16:10:43 GMT

←Older revision		Revision as of 16:10, 22 October 2020
Line 6:		Line 6:

	<scene name='85/857774/Ag/1'>AG</scene>: <scene name='85/857774/Glucose/1'>Glucose</scene>		<scene name='85/857774/Ag/1'>AG</scene>: <scene name='85/857774/Glucose/1'>Glucose</scene>
-		+	asd
	<scene name='85/857774/Ar/5'>AR</scene> (<jmol>		<scene name='85/857774/Ar/5'>AR</scene> (<jmol>
	<jmolCheckbox>		<jmolCheckbox>

Karsten Theis at 16:04, 22 October 2020

Karsten Theis — Thu, 22 Oct 2020 16:04:24 GMT

←Older revision		Revision as of 16:04, 22 October 2020
Line 33:		Line 33:
	<scene name='85/857774/Mb/1'>MB</scene>: <scene name='85/857774/Succinylcoa/1'>SuccinylCoA</scene>, <scene name='85/857774/Nad/1'>NAD		<scene name='85/857774/Mb/1'>MB</scene>: <scene name='85/857774/Succinylcoa/1'>SuccinylCoA</scene>, <scene name='85/857774/Nad/1'>NAD
	</scene>		</scene>
-	~~hjk~~	+
	<scene name='85/857774/Md/1'>MD</scene> (<jmol>		<scene name='85/857774/Md/1'>MD</scene> (<jmol>
	<jmolCheckbox>		<jmolCheckbox>

Karsten Theis at 16:04, 22 October 2020

Karsten Theis — Thu, 22 Oct 2020 16:04:02 GMT

←Older revision		Revision as of 16:04, 22 October 2020
Line 33:		Line 33:
	<scene name='85/857774/Mb/1'>MB</scene>: <scene name='85/857774/Succinylcoa/1'>SuccinylCoA</scene>, <scene name='85/857774/Nad/1'>NAD		<scene name='85/857774/Mb/1'>MB</scene>: <scene name='85/857774/Succinylcoa/1'>SuccinylCoA</scene>, <scene name='85/857774/Nad/1'>NAD
	</scene>		</scene>
-		+	hjk
	<scene name='85/857774/Md/1'>MD</scene> (<jmol>		<scene name='85/857774/Md/1'>MD</scene> (<jmol>
	<jmolCheckbox>		<jmolCheckbox>

Karsten Theis: /* Visualization framework ([https://biomolviz.org/ BIOMOLVIZ]) */

Karsten Theis — Thu, 22 Oct 2020 00:26:53 GMT

Visualization framework ([https://biomolviz.org/ BIOMOLVIZ])

←Older revision		Revision as of 00:26, 22 October 2020
Line 9:		Line 9:
	<scene name='85/857774/Ar/5'>AR</scene> (<jmol>		<scene name='85/857774/Ar/5'>AR</scene> (<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenUnChecked>animation off; ~~delay 1; model 2~~	+	<scriptWhenUnChecked>animation off;
	</scriptWhenUnChecked>		</scriptWhenUnChecked>
	<scriptWhenchecked>animation mode loop 0.0 0.0; animation FPS 1; animation on		<scriptWhenchecked>animation mode loop 0.0 0.0; animation FPS 1; animation on

Karsten Theis at 00:26, 22 October 2020

Karsten Theis — Thu, 22 Oct 2020 00:26:01 GMT

←Older revision		Revision as of 00:26, 22 October 2020
Line 7:		Line 7:
	<scene name='85/857774/Ag/1'>AG</scene>: <scene name='85/857774/Glucose/1'>Glucose</scene>		<scene name='85/857774/Ag/1'>AG</scene>: <scene name='85/857774/Glucose/1'>Glucose</scene>

-	<scene name='85/857774/Ar/4'>AR</scene> (<jmol>	+	<scene name='85/857774/Ar/5'>AR</scene> (<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenUnChecked>animation off; delay 1; model 2		<scriptWhenUnChecked>animation off; delay 1; model 2
	</scriptWhenUnChecked>		</scriptWhenUnChecked>
-	<scriptWhenchecked>animation mode loop 0.0 0.0; animation FPS 2; animation on	+	<scriptWhenchecked>animation mode loop 0.0 0.0; animation FPS 1; animation on
	</scriptWhenchecked>		</scriptWhenchecked>
	<checked>true</checked>		<checked>true</checked>

Karsten Theis: /* Visualization framework ([https://biomolviz.org/ BIOMOLVIZ]) */

Karsten Theis — Thu, 08 Oct 2020 16:09:48 GMT

Visualization framework ([https://biomolviz.org/ BIOMOLVIZ])

←Older revision		Revision as of 16:09, 8 October 2020
Line 28:		Line 28:
	<scene name='85/857774/Lm/1'>LM</scene>: <scene name='85/857774/Heme/2'>Myoglobin</scene>		<scene name='85/857774/Lm/1'>LM</scene>: <scene name='85/857774/Heme/2'>Myoglobin</scene>

-	<scene name='85/857774/Ma/1'>MA</scene>:	+	<scene name='85/857774/Ma/1'>MA</scene>: <scene name='85/857774/Lipid_bilayer/2'>lipid bilayer</scene>, <scene name='85/857774/Virus_capsid/1'>virus capsid
		+	</scene>

	<scene name='85/857774/Mb/1'>MB</scene>: <scene name='85/857774/Succinylcoa/1'>SuccinylCoA</scene>, <scene name='85/857774/Nad/1'>NAD		<scene name='85/857774/Mb/1'>MB</scene>: <scene name='85/857774/Succinylcoa/1'>SuccinylCoA</scene>, <scene name='85/857774/Nad/1'>NAD
	</scene>		</scene>

-	<scene name='85/857774/Lipid_bilayer/2'>lipid bilayer</scene>, <scene name='85/857774/Virus_capsid/1'>virus capsid
-	</scene>
	<scene name='85/857774/Md/1'>MD</scene> (<jmol>		<scene name='85/857774/Md/1'>MD</scene> (<jmol>
	<jmolCheckbox>		<jmolCheckbox>

Karsten Theis: /* Visualization framework ([https://biomolviz.org/ BIOMOLVIZ]) */

Karsten Theis — Thu, 08 Oct 2020 16:08:33 GMT

Visualization framework ([https://biomolviz.org/ BIOMOLVIZ])

←Older revision		Revision as of 16:08, 8 October 2020
Line 17:		Line 17:
	</jmolCheckbox>		</jmolCheckbox>
	</jmol>): <scene name='85/857774/Overall/2'>Lysozyme</scene> (and <scene name='85/857774/Overall/3'>alternate view</scene>)		</jmol>): <scene name='85/857774/Overall/2'>Lysozyme</scene> (and <scene name='85/857774/Overall/3'>alternate view</scene>)
-
-

	<scene name='85/857774/Ca/1'>CA</scene> (<jmol>		<scene name='85/857774/Ca/1'>CA</scene> (<jmol>
Line 30:		Line 28:
	<scene name='85/857774/Lm/1'>LM</scene>: <scene name='85/857774/Heme/2'>Myoglobin</scene>		<scene name='85/857774/Lm/1'>LM</scene>: <scene name='85/857774/Heme/2'>Myoglobin</scene>

-	<scene name='85/857774/Ma/1'>MA</scene>: <scene name='85/857774/Lipid_bilayer/2'>lipid bilayer</scene>, <scene name='85/857774/Virus_capsid/1'>virus capsid	+	<scene name='85/857774/Ma/1'>MA</scene>:
		+
		+	<scene name='85/857774/Mb/1'>MB</scene>: <scene name='85/857774/Succinylcoa/1'>SuccinylCoA</scene>, <scene name='85/857774/Nad/1'>NAD
		+	</scene>
		+
		+	<scene name='85/857774/Lipid_bilayer/2'>lipid bilayer</scene>, <scene name='85/857774/Virus_capsid/1'>virus capsid
	</scene>		</scene>
	<scene name='85/857774/Md/1'>MD</scene> (<jmol>		<scene name='85/857774/Md/1'>MD</scene> (<jmol>
Line 43:		Line 46:
	</jmol>): <scene name='User:Wayne_Decatur/1cts_to_2cts_(citrate_synthase)_morph_methods/Camorph/5'>citrate synthase</scene>		</jmol>): <scene name='User:Wayne_Decatur/1cts_to_2cts_(citrate_synthase)_morph_methods/Camorph/5'>citrate synthase</scene>

-	<scene name='85/857774/Molecularinteraction/1'>MI</scene>: <scene name='85/857774/Molecularinteraction/1'>major groove interaction</scene>, <scene name='85/857774/Dna/1'>base stacking</scene>, <scene name='85/857774/Dna/2'>G-protein</scene>	+	<scene name='85/857774/Molecularinteraction/1'>MI</scene>: <scene name='85/857774/Molecularinteraction/1'>major groove interaction</scene>, <scene name='85/857774/Dna/1'>base stacking</scene>, <scene name='85/857774/Dna/2'>G-protein</scene> [[User:Karsten Theis/Molecular Interactions\|Theme page]]
-		+
-	~~<scene name='85/857774/Mb/1'>MB</scene>~~: ~~<scene name='85/857774/Succinylcoa/1'>SuccinylCoA</scene>, <scene name='85/857774/Nad/1'>NAD~~	+
-	</~~scene>~~	+

	<scene name='85/857774/Sa/1'>SA</scene> (<jmol>		<scene name='85/857774/Sa/1'>SA</scene> (<jmol>