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1. Scene authoring tools (23,035 bytes)
   1: ...for creating a molecular scene with Proteopedia's Scene Authoring Tools]], and watch the introductory vid...
   3: ==Where are the ''Scene authoring tools''?==
   6: ...''. Click on '''show''' to expand and open the ''Scene authoring tools''. If, however, the page does not...
   11: ...tion='Insert caption here' scene='Insert optional scene name here' />
   16: ...for creating a molecular scene with Proteopedia's Scene Authoring Tools]] for tutorial examples.
2. Help:Scene authoring tools (35 bytes)
   1: #REDIRECT [[Scene authoring tools]]
3. Image:Cavitycompare1 scene 1.min.pngj (26 bytes)
4. Image:Cavitycompare2 scene 1.all.pngj (26 bytes)
5. Image:Cavitycompare2 scene 1.min.pngj (26 bytes)
6. Image:Cavitycompare1 scene 1.all.pngj (26 bytes)
7. Proteopedia:How to Make a Scene (44 bytes)
8. Sandbox scene (708 bytes)
   6: ...עוני של המוגלובין' scene='Sandbox_scene/Start/1' />
   9: .../1'>קבוצות ההם על רקע החלבון</scene>
   11: ...'>קבוצות ההם בלבד ללא חלבון</scene>
   13: ...dbox_scene/Start/1'>חזרה למודל המלא</scene>
9. Image:Inhibitors1 scene 4.all.pngj (26 bytes)
10. Image:Inhibitors1 scene 4.min.pngj (26 bytes)
11. Image:Cavitycompare1 scene 2.all.pngj (26 bytes)
12. Image:Cavitycompare1 scene 2.min.pngj (26 bytes)
13. Image:Cavitycompare2 scene 2.all.pngj (26 bytes)
14. Image:Cavitycompare2 scene 2.min.pngj (26 bytes)
15. Scene Authoring Tools (35 bytes)
    1: #REDIRECT [[Scene authoring tools]]
16. Image:1A2 scene 1.pngj (0 bytes)
17. Image:1A2 scene 1.spt.pngj (0 bytes)
18. Image:1A2 scene 2.pngj (0 bytes)
19. Image:1A2 scene 2.spt.pngj (0 bytes)
20. Image:1A2 scene 3.pngj (0 bytes)

Page text matches

1. Help:Editing (24,612 bytes)
   15: If you plan to edit the text or the molecular scenes in an existing page, you can skip this section. ...
   45: ==<big>To create or edit Proteopedia Scenes</big>==
   46: ...sert it using the appropriate wikitext that the ''Scene Authoring Tools'' will generate for you.
   48: '''SCENE TUTORIAL MOVIE:''' There is a video tutorial avai...
   50: ...o to the applet above the <nowiki><scene ...>...</scene></nowiki> tag in the wikitext.
2. Matrix metalloproteinases (1,425 bytes)
   2: {{STRUCTURE_2clt| PDB=2clt | SIZE=300| SCENE=Matrix_metalloproteinase/Cv/1 |right| CAPTION= ...
3. Hemoglobin (21,535 bytes)
   1: ... chain (green and yellow) with bound O2 [[1gzx]]" scene="Hemoglobin/Foursubunits/5" >
   3: ... <scene name='Hemoglobin/4heme/3'>heme molecules</scene> give hemoglobin its red color.
   5: ...in/Oxysubunitsf/4'>oxygenated heme group is held</scene> within the polypeptide.
   7: ...'Hemoglobin/Anchortrace/5'>Anchoring of the heme</scene> is facilitated by a histidine nitrogen that bind...
   9: ...32/Hemoglobins_1hho/9'>glutamic acid to a valine</scene>. This hemoglobin variant is termed 'hemoglobin ...
4. Ann Taylor/Hemoglobin (7,678 bytes)
   1: ... chain (green and yellow) with bound O2 [[1gzx]]" scene="Hemoglobin/1gzx/2" >
   2: ... <scene name='Hemoglobin/4heme/3'>heme molecules</scene> give hemoglobin its red color.
   4: ...me='57/576710/Oxy_fe_planarity/2'>into the plane</scene> of the heme.
   6: ...bin structure and vice versa. Remember that this scene shows a subunit in the all-unliganded versus the ...
   11: ...7/576710/Glu_to_val/1'>glutamic acid to a valine</scene>. This hemoglobin variant is called 'hemoglobin ...
5. Help:Contents (6,488 bytes)
   14: ...arn how to get the most out of the interactive 3D scenes, reference the [[Help:Viewing pages|Viewing guid...
   37: ...lass="fas fa-cubes"></i> For authors: creating 3D scenes===
   38: ...stand is available at [[Proteopedia:How to Make a Scene]].
   45: ... embed videos, and integrate different data in 3D scenes, see [[Help:Multimedia]]. Proteopedia hosts imag...
   49: ...ctivity]]). Consult [[Help:Jmol]] for advanced 3D scenes. To look under the hood of other pages, use the ...
6. Proteopedia:About (7,060 bytes)
   43: ... to render the rotatable, zoomable macromolecular scenes. <!--The [http://kinemage.biochem.duke.edu/softw...
7. Scene authoring tools (23,035 bytes)
   1: ...for creating a molecular scene with Proteopedia's Scene Authoring Tools]], and watch the introductory vid...
   3: ==Where are the ''Scene authoring tools''?==
   6: ...''. Click on '''show''' to expand and open the ''Scene authoring tools''. If, however, the page does not...
   11: ...tion='Insert caption here' scene='Insert optional scene name here' />
   16: ...for creating a molecular scene with Proteopedia's Scene Authoring Tools]] for tutorial examples.
8. Sandbox 781 (8,140 bytes)
   3: ...me='61/612822/Asymmetric_unit/1'>asymmetric unit</scene> ((6OYH))' size='340' side='right' caption='Cryst...
   13: ...42/421575/Carbacaprazamycin/1'>Carbacaprazamycin</scene> is a chemically stable analog of caprazamycin nu...
   24: ...me='61/612822/Asymmetric_unit/1'>asymmetric unit</scene>, which contains 4 biological units of MraYAA (co...
   28: ... Asp118 which are involved in Mg2+coordination</scene> <ref name="four">PMID:29438582</ref>.TM5–TM10...
   30: ...21575/Binding_site/1'> T75, N190, D193, and G264</scene>, called the uridine-adjacent pocket. The 5-amino...
9. Sean Swale/Human Thrombin Inhibitor (6,165 bytes)
   2: {{STRUCTURE_3utu| PDB=3utu | SIZE=400| SCENE= |right|CAPTION=Human Thrombin, heavy chain (red)...
   4: ...Human_Thrombin_Inhibitor/Active_site/3'>Thrombin</scene> Inhibitor===
   5: ..._Thrombin_Inhibitor/Inhibitor_65/1'>inhibitor 65</scene>.<ref> DOI: 10.1002/cmdc.201200292</ref>
   12: ...e/Human_Thrombin_Inhibitor/P2_proline/1'>proline</scene> residue is in another hydrophobic pocket made up...
   18: ...an_Thrombin_Inhibitor/P3_binding_site/6'>residue</scene>, there the backbone of asparagine forms and anti...
10. User:Anna Leibinger/Sandbox 1 (12,800 bytes)
    135: ...cratch or loading and editing one of these sample scenes.
11. User:Juliette Personius/sandbox 1 (7,068 bytes)
    1: ...x_1/Tyrosines_1349_and_1356/1'>TextToBeDisplayed</scene>===Hepatocyte Growth Factor Receptor c-Met===
    8: {{STRUCTURE_1r1w| PDB=1r1w | SCENE= }}
    10: ...49_and_1356/1'>tyrosine residues (1349 and 1356)</scene> . Studies with mice have shown that these tyrosi...
    11: ...te_Personius/sandbox_1/Beta_sheets/2'>β-sheets </scene> and is linked through a hinge to the C lobe, whi...
    15: {{STRUCTURE_1r0p| PDB=1r0p | SCENE= }}
12. User:Juliette Personius/Sandbox 1 (90 bytes)
    1: {{STRUCTURE_1r0p| PDB=1r0p | SCENE= }}
13. User:Valentine J Klimkowski/Sandbox 99 (1,232 bytes)
    2: ...tion='Insert caption here' scene='Insert optional scene name here' />
    4: <scene name='10/1040145/7tyf_init/2'>7tyf_init</scene>
    6: ... name='10/1040145/7tyf_removess/2'>7tyf_removeSS</scene>
    8: ...f-7tyy-7tyf_aligned/1'>aligned imported together</scene>
    9: ...ne name='10/1040145/7tyy-aligned/1'>7tyy-aligned</scene>
14. User:Jaime Prilusky/Test/SAT Molstar (3,477 bytes)
    1: ...' size='340' side='right' caption='initial scene' scene='83/839292/1cbs_experimental_data/1'>
    3: ...name='83/839292/1cbs_experimental_data/1'>initial scene</snapshot> as examples. Also, you may use <snaps...
    33: ...cene name='83/839292/corona/1'>should be ignored</scene>
    45: <scene>83/839292/Test/4</scene>
15. Wittman Gal4 Sandbox (1,419 bytes)
    3: {{STRUCTURE_1d66| PDB=1d66 | SCENE= }}
16. Sandbox 10-Mar-2026 (1,664 bytes)
    2: ...side='right' caption='Caption for this structure' scene=''>
    8: ...LM_Fig_2a_pse/1'>Image_LM_Fig_2a_pse_No_Optimize</scene>
    10: .../SB_PY_2_6_2_pse/4'>Image_LM_Fig_2a_pse_Optimize</scene>
    12: ...0328/SB_PY_2_6_2_pse/2'>PY_2_6_2.pse No Optimize</scene>
    14: ...SB_PY_2_6_2_pse_Optimize/1'>PY_2_6_2.pse Optimiz</scene>
17. Sandbox 7 Mar 2026d (1,400 bytes)
    2: ...side='right' caption='Caption for this structure' scene=''>
    7: ...ne name='10/1050325/Sandbox_07_mar_2026d/1'>AChE</scene>
    9: ...'10/1050325/Sandbox_07_mar_2026d/2'>AChE Blow Up</scene>
    11: ...050325/Sandbox_07_mar_2026d/3'>2ace AChE Blow Up</scene>
    13: ...050325/Sandbox_07_mar_2026d/4'>2ace AChE Blow Up</scene>
18. Sandbox transition test (1,835 bytes)
    2: ...side='right' caption='Caption for this structure' scene=''>
    10: ...ame='10/1050327/Sb_transition_default/1'>Default</scene>
    14: ...1050327/Sb_transition_default/2'>default blow up</scene>
    16: ...efault/4'>No Reload Blow Up Change Color YES YES</scene>
    22: ...ractionshown/8'>indirectly via solvent molecules</scene>.
19. User:Wayne Decatur/UNH BCHEM833 Structural Analysis Workshop Session Fall 2012 (17,130 bytes)
    98: **Jmol in FirstGlance or Jmol via Proteopedia's Scene Authoring Tools:
    105: ...[[1d66]] in [[Scene authoring tools|Proteopedia's Scene Authoring Tools]]
    133: ==Proteopedia Scene Authoring==
    134: *[[Scene authoring tools|Proteopedia's Scene Authoring Tools]]
    135: **Load a structure [[1d66]] or previous scene
20. Sandbox 7 Mar 2026 (1,014 bytes)
    2: ...side='right' caption='Caption for this structure' scene=''>
    7: .../1050322/SB_7_Mar_2026/1'>N020_Fig_6a_lab_sp.pse</scene>
    14: ...cratch or loading and editing one of these sample scenes.

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