Sandbox Reserved 1667

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{{Sandbox_Reserved_BHall_Sp21}}<!-- PLEASE ADD YOUR CONTENT BELOW HERE -->
{{Sandbox_Reserved_BHall_Sp21}}<!-- PLEASE ADD YOUR CONTENT BELOW HERE -->
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==Your Heading Here (maybe something like 'Structure')==
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==Structure of Human PYCR1 with THFA Complex==
<StructureSection load='6XOZ' size='340' side='right' caption='Caption for this structure' scene=''>
<StructureSection load='6XOZ' size='340' side='right' caption='Caption for this structure' scene=''>
This is a default text for your page ''''''. Click above on '''edit this page''' to modify. Be careful with the &lt; and &gt; signs.
This is a default text for your page ''''''. Click above on '''edit this page''' to modify. Be careful with the &lt; and &gt; signs.
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== Function of your protein ==
== Function of your protein ==
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THFA is a protein that binds to PYCR1 and works as a weak inhibitor. PYCR1 inhibits proline synthesis to P5C.
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<scene name='87/873229/6xoz/10'>PYCR1 is a macromolecule found in humans. It is a potential cancer therapy target. In this variation of the protein, the ligand THFA binds to PYCR1 and works as a weak inhibitor as THFA blocks the ability of proline to bind. PYCR1 reverses the intermediate Pyrroline 5-carboxylate (P5C) in Proline synthesis.</scene>
== Biological relevance and broader implications ==
== Biological relevance and broader implications ==
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Because cancer cells increase proline numbers when THFA is present within PYCR1, it binds to areas that proline would normally bind because of THFA's similarity to proline in size, shape, and noncovalent bonds. When THFA binds to PYCR1, the ligand is able to act as an inhibitor. This could be an important finding in breast cancer research.
== Important amino acids==
== Important amino acids==
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<scene name='87/873229/All_ligands/1'>This shows all 5 THFA ligands.</scene> <scene name='87/873229/Ligand_view/2'>THFA is a proline analog inhibitor that interacts with the amino acids Ser233, Val231, Thr238, and Ala237 within the PYCR1 structure.</scene> <scene name='87/873229/Ligand_water/1'>This image shows the Oxygen binding of THFA.</scene>
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<scene name='87/873229/Important_amino_acids/1'>Ser233, Val231, Thr238, and Ala237 within the PYCR1 structure.</scene>
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== Structural highlights ==
== Structural highlights ==
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<scene name='87/873229/Alpha_helix/2'>These are the alpha helix in PYCR1 highlighted in dark blue. </scene>
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<scene name='87/873229/Beta_sheet/2'>These are the beta sheets in PYCR1 highlighted in red. </scene>
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<scene name='87/873229/Alpha_beta/1'>These are the alpha helix and beta sheets in PYCR1 highlighted in light blue with the other structures and ligands highlighted in maroon.</scene>
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<scene name='87/873229/Tertiary_structures/1'>Chain E tertiary structure.</scene>
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<scene name='87/873229/Quaternary_structure/1'>Protein quarternary structure.</scene>
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== Other important features ==
 
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This is a sample scene created with SAT to <scene name="/12/3456/Sample/1">color</scene> by Group, and another to make <scene name="/12/3456/Sample/2">a transparent representation</scene> of the protein. You can make your own scenes on SAT starting from scratch or loading and editing one of these sample scenes.
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== Other important features ==
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<scene name='87/873229/Hydrophobic_polar/1'>Hydrophobic areas in grey. Polar areas in purple. Proline is hydrophobic so would need to bind in hydrophobic areas. </scene>
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<scene name='87/873229/Proline/1'>Prolines highlighted in black.</scene>
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<scene name='87/873229/Proline_and_hydrophobic/1'>Proline against hydrophobic areas.</scene>
</StructureSection>
</StructureSection>

Current revision

This Sandbox is Reserved from 01/25/2021 through 04/30/2021 for use in Biochemistry taught by Bonnie Hall at Grand View University, Des Moines, USA. This reservation includes Sandbox Reserved 1665 through Sandbox Reserved 1682.
To get started:
  • Click the edit this page tab at the top. Save the page after each step, then edit it again.
  • show the Scene authoring tools, create a molecular scene, and save it. Copy the green link into the page.
  • Add a description of your scene. Use the buttons above the wikitext box for bold, italics, links, headlines, etc.

More help: Help:Editing

Structure of Human PYCR1 with THFA Complex

Caption for this structure

Drag the structure with the mouse to rotate

References

  1. ↑ Hanson, R. M., Prilusky, J., Renjian, Z., Nakane, T. and Sussman, J. L. (2013), JSmol and the Next-Generation Web-Based Representation of 3D Molecular Structure as Applied to Proteopedia. Isr. J. Chem., 53:207-216. doi:http://dx.doi.org/10.1002/ijch.201300024
  2. ↑ Herraez A. Biomolecules in the computer: Jmol to the rescue. Biochem Mol Biol Educ. 2006 Jul;34(4):255-61. doi: 10.1002/bmb.2006.494034042644. PMID:21638687 doi:10.1002/bmb.2006.494034042644

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