User:Wayne Decatur/mof dev: Difference between revisions

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Wayne Decatur (talk | contribs)
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add additional spacefill toggle
 
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<StructureSection load='' size='450' side='right' caption='A Metal–organic framework structure: the CSD entry JARMEU' scene='10/1092924/Jarmeu_basics/1' >
<StructureSection load='' size='450' side='right' caption='A Metal–organic framework structure: the CSD entry JARMEU' scene='10/1092924/Csd_entry_jarmeu_basics/2' >
A cubic diamond lattice metal-organic framework <ref group="xtra">B.F. Hoskins and R. Robson. 1989. Infinite polymeric frameworks consisting of three dimensionally linked rod-like segments. Journal of the American Chemical Society, v111, pg. 5962-5964, [https://pubs.acs.org/doi/abs/10.1021/ja00197a079 |DOI: 10.1021/ja00197a079]</ref>




<!-- important to note you need to use 'side' in a StructureSection instead of 'align'. If you leave 'align' it doesn't work.-->
==Background==
==Background==


Synthesized metal-organic frameworks have been shown to have a wide range of applications, as [[Proteopedia:Hot_News|highlighted three chemists doing seminal work in this field being awarded the Nobel Prize in Chemistry in 2025]].
Synthesized metal-organic frameworks have been shown to have a wide range of applications, as [[Proteopedia:Hot_News|highlighted three chemists doing seminal work in this field being awarded the Nobel Prize in Chemistry in 2025]].


Here the crystal structure of a cubic diamond metal-organic framework is featured;  [https://www.ccdc.cam.ac.uk/structures/Search?Ccdcid=JARMEU&DatabaseToSearch=CSD the CSD entry JARMEU]. <br/>
Here the crystal structure of a cubic diamond metal-organic framework is featured;  [https://www.ccdc.cam.ac.uk/structures/Search?Ccdcid=JARMEU&DatabaseToSearch=CSD the CSD entry JARMEU]<ref>B.F. Hoskins and R. Robson. 1989. Infinite polymeric frameworks consisting of three dimensionally linked rod-like segments. Journal of the American Chemical Society, v111, pg. 5962-5964, [https://pubs.acs.org/doi/abs/10.1021/ja00197a079 |DOI: 10.1021/ja00197a079]</ref>. <br/>
This is the structure that revealed that a crystalline, diamondoid, extended framework was formed that had large cavities, establishing this class of solid polymeric materials.
This is the structure that revealed that a crystalline, diamondoid, extended framework was formed that had large cavities, establishing this class of solid polymeric materials.


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Shown at the right is the building block of the lattice (<scene name='10/1092924/Jarmeu_basics/1'>restore initial scene</scene>).
Shown at the right is the building block of the network (<scene name='10/1092924/Csd_entry_jarmeu_basics/2'>restore initial scene</scene>).


<span style="font-size:200%;">{{Template:ColorKey_Element_C}}, {{Template:ColorKey_Element_N}}, '''{{Font color|#C88033|Cu}}'''</span>
<span style="font-size:200%;">{{Template:ColorKey_Element_C}}, {{Template:ColorKey_Element_N}}, '''{{Font color|#C88033|Cu}}'''</span>
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</jmol>
</jmol>


The metal here is copper.
The metal here is copper.<br/> 
A beautiful diamondoid structure appears that is a 4-connected network. <br/>


When the repeats of this building block are shown connected to others, the lattice appears. Viewing the <scene name='10/1092924/Csd_entry_jarmeu_1x1x3_set/3'>the CSD entry JARMEU as a 1x1x3 set of the metal organic framework</scene> illustrates this.<br/>   
When the repeats of this 4-connected network building block are shown connected to others, the crystalline lattice appears.<br/>
When considered this way a beautiful diamondoid structure appears that is a 4-connected network. <br/>
Viewing the <scene name='10/1092924/Csd_entry_jarmeu_1x1x3_set/4'>the CSD entry JARMEU as a 1x3x3 set of the metal organic framework</scene> illustrates this.<br/>   
The large cavities are visible as the lattice layers onto itself as the view of the structure rotates. <br/>
The large cavities are visible as the lattice layers onto itself as the view of the structure rotates. <br/>
The cavities would contain anions and solvent that are not shown in this crystal structure as they'd be freely moving and randomly distributed.
The cavities would contain anions and solvent that are not shown in this crystal structure as they'd be freely moving and randomly distributed.


The extensive nature of the network with the large cavities becomes more apparent if we consider more of the repeated building blocks. <br/>
The extensive crystalline nature with the large cavities becomes more apparent if we consider more of the repeated building blocks. <br/>
<scene name='10/1092924/Csd_entry_jarmeu_1x3x3_plane/2'>The CSD entry JARMEU as a 1x3x3 plane of the metal organic framework</scene>. (Substatntial patience required when loading this scene; it is suggested to only do that after you have examined the others.)
<scene name='10/1092924/Csd_entry_jarmeu_lattice/4'>The CSD entry JARMEU as a 1x4x6 lattice of the metal organic framework</scene>.
 
<jmol>
<jmolCheckbox>
  <scriptWhenChecked>hide all and not cell=555;</scriptWhenChecked>
  <scriptWhenUnchecked>display all;</scriptWhenUnchecked>
  <checked>false</checked>
  <!-- <checked></checked> set it to false or delete it or comment it out as <checked>false</checked> or <checked> </checked>still show as checked-->
  <text>Toggle to limit to what is in just key cell vs. current lattice network context</text>
</jmolCheckbox>
</jmol>
 
<jmol>
<jmolCheckbox>
  <scriptWhenChecked>select all; spacefill on;</scriptWhenChecked>
  <scriptWhenUnchecked>select all; spacefill 0.35; select hydrogen; spacefill 0.25;</scriptWhenUnchecked>
  <checked>false</checked>
  <!-- <checked></checked> set it to false or delete it or comment it out as <checked>false</checked> or <checked> </checked>still show as checked-->
  <text>CPK Spacefll mode</text>
</jmolCheckbox>
</jmol>


<jmol>
<jmol>
<jmolButton>
<jmolButton>
<script>load /wiki/scripts/10/1092924/Jarmeu_basics/1.spt</script>
<script>load /wiki/scripts/10/1092924/Csd_entry_jarmeu_basics/2.spt</script>
<text>Restore Default Scene</text>
<text>Restore Default Scene</text>
</jmolButton>
</jmolButton>
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<br/>
<br/>
-->
-->


==Significance==
==Significance==
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Highlighting the significance is the fact [[Proteopedia:Hot_News| three chemists doing seminal work in this field were awarded the Nobel Prize in Chemistry in 2025]]. The structure featured here played a key role in establishing this field.
Highlighting the significance is the fact [[Proteopedia:Hot_News| three chemists doing seminal work in this field were awarded the Nobel Prize in Chemistry in 2025]]. The structure featured here played a key role in establishing this field.


</StructureSection>
</StructureSection>
==Technical Details==
The views featuring the 1x1x3 set and the plane were built using [https://chemapps.stolaf.edu/jmol/jsmol/jcse/explore.htm the Jmol Crystal Symmetry Explorer] to examine [https://www.ccdc.cam.ac.uk/structures/Search?Ccdcid=JARMEU&DatabaseToSearch=CSD CSD Entry: JARMEU].


==References==
==References==
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==See also==
==See also==
* [[A catalytic molybdenum metal-organic framework]]
* [[Catalytic Molybdenum Metal-Organic Framework]]
* [[Metal-Ligand Polyhedra]]
* [[Metal-Ligand Polyhedra]]

Latest revision as of 21:16, 12 October 2025

A Metal–organic framework structure: the CSD entry JARMEU

Drag the structure with the mouse to rotate

References


See also

Proteopedia Page Contributors and Editors (what is this?)

Wayne Decatur

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