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8jpx - Revision history
2026-04-15T11:29:08Z
Revision history for this page on the wiki
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http://52.214.119.220/wiki/index.php?title=8jpx&diff=4031871&oldid=prev
OCA at 11:43, 1 February 2024
2024-02-01T11:43:03Z
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<td colspan='2' style="background-color: white; color:black;">←Older revision</td>
<td colspan='2' style="background-color: white; color:black;">Revision as of 11:43, 1 February 2024</td>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>'''Unreleased structure'''</div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;">The entry </del>8jpx is <del style="color: red; font-weight: bold; text-decoration: none;">ON HOLD until Paper Publication</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">==Cryo-EM structure of PfAgo-guide DNA-target DNA complex==</ins></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div> </div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"><StructureSection load='</ins>8jpx<ins style="color: red; font-weight: bold; text-decoration: none;">' size='340' side='right'caption='[[8jpx]], [[Resolution|resolution]] 2.90&Aring;' scene=''></ins></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;">Authors</del>: <del style="color: red; font-weight: bold; text-decoration: none;">Zhuang</del>, <del style="color: red; font-weight: bold; text-decoration: none;">L</del>.</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">== Structural highlights ==</ins></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div> </div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"><table><tr><td colspan='2'>[[8jpx]] </ins>is <ins style="color: red; font-weight: bold; text-decoration: none;">a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_furiosus_DSM_3638 Pyrococcus furiosus DSM 3638]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8JPX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8JPX FirstGlance]. <br></ins></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;">Description</del>: <del style="color: red; font-weight: bold; text-decoration: none;">Cryo</del>-<del style="color: red; font-weight: bold; text-decoration: none;">EM structure </del>of <del style="color: red; font-weight: bold; text-decoration: none;">an RNP</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 2.9&#8491;</td></tr></ins></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>[[Category: <del style="color: red; font-weight: bold; text-decoration: none;">Unreleased </del>Structures]]</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands</ins>:<ins style="color: red; font-weight: bold; text-decoration: none;">]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr></ins></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>[[Category: Zhuang<del style="color: red; font-weight: bold; text-decoration: none;">, </del>L]]</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=8jpx FirstGlance]</ins>, <ins style="color: red; font-weight: bold; text-decoration: none;">[http://oca</ins>.<ins style="color: red; font-weight: bold; text-decoration: none;">weizmann.ac.il/oca-bin/ocaids?id=8jpx OCA], [https://pdbe.org/8jpx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8jpx RCSB], [https://www.ebi.ac.uk/pdbsum/8jpx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8jpx ProSAT]</span></td></tr></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></table></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">== Function ==</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">[https</ins>:<ins style="color: red; font-weight: bold; text-decoration: none;">//www.uniprot.org/uniprot/AGO_PYRFU AGO_PYRFU] A DNA</ins>-<ins style="color: red; font-weight: bold; text-decoration: none;">guided ssDNA endonuclease that may play a role in defense against invading mobile genetic elements. Uses short 5'-phospho-ssDNA sequences as guides (gDNA) to bind complementary target strands, resulting in cleavage </ins>of <ins style="color: red; font-weight: bold; text-decoration: none;">the target DNA (tDNA). Endonucleolytically cleaves DNA in short dsDNA (the gDNA indicates where to cleave on the tDNA). Efficient guide-dependent target DNA cleavage requires a minimal gDNA length of 15 nucleotides (nt) and works up to at least 31 nt. Overexpression decreases plasmid transformation efficiency. Has no appreciable activity with gRNA or on target RNA. Also has guide-independent activity on plasmid DNA called 'chopping' (PubMed:25925567). The cleavage site is 10 nucleotides (nt) downstream of the target residue base-paired with the 5'-end of the gDNA, cleavage is insensitive to adenine methylation. DNA cleavage produces 5'-phosphomonoesters (as it can be ligated by T4 DNA ligase) (PubMed:28165224).<ref>PMID:25925567</ref> <ref>PMID:28165224</ref> </ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">== References ==</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"><references/></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">__TOC__</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></StructureSection></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>[[Category: <ins style="color: red; font-weight: bold; text-decoration: none;">Large </ins>Structures<ins style="color: red; font-weight: bold; text-decoration: none;">]]</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">[[Category: Pyrococcus furiosus DSM 3638</ins>]]</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>[[Category: Zhuang L]]</div></td></tr>
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OCA
http://52.214.119.220/wiki/index.php?title=8jpx&diff=3809037&oldid=prev
OCA at 10:43, 26 July 2023
2023-07-26T10:43:09Z
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<td colspan='2' style="background-color: white; color:black;">Revision as of 10:43, 26 July 2023</td>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>The entry 8jpx is ON HOLD </div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>The entry 8jpx is ON HOLD <ins style="color: red; font-weight: bold; text-decoration: none;"> until Paper Publication</ins></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Authors: Zhuang, L.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Authors: Zhuang, L.</div></td></tr>
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OCA
http://52.214.119.220/wiki/index.php?title=8jpx&diff=3791429&oldid=prev
OCA: Protected "8jpx" [edit=sysop:move=sysop]
2023-06-21T08:06:38Z
<p>Protected "<a href="/wiki/index.php/8jpx" title="8jpx">8jpx</a>" [edit=sysop:move=sysop]</p>
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<td colspan='2' style="background-color: white; color:black;">Revision as of 08:06, 21 June 2023</td>
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OCA
http://52.214.119.220/wiki/index.php?title=8jpx&diff=3791428&oldid=prev
OCA: New page: '''Unreleased structure''' The entry 8jpx is ON HOLD Authors: Zhuang, L. Description: Cryo-EM structure of an RNP Category: Unreleased Structures Category: Zhuang, L
2023-06-21T08:06:37Z
<p>New page: '''Unreleased structure''' The entry 8jpx is ON HOLD Authors: Zhuang, L. Description: Cryo-EM structure of an RNP <a href="/wiki/index.php/Category:Unreleased_Structures" title="Category:Unreleased Structures">Category: Unreleased Structures</a> <a href="/wiki/index.php/Category:Zhuang%2C_L" title="Category:Zhuang, L">Category: Zhuang, L</a></p>
<p><b>New page</b></p><div>'''Unreleased structure'''<br />
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The entry 8jpx is ON HOLD <br />
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Authors: Zhuang, L.<br />
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Description: Cryo-EM structure of an RNP<br />
[[Category: Unreleased Structures]]<br />
[[Category: Zhuang, L]]</div>
OCA