9os2: Difference between revisions

Line 1:

~~'''Unreleased structure'''~~

~~The entry~~ 9os2 is ~~ON HOLD until Paper~~ Publication

==Cryo-EM structure of the DDB1/CRBN-MRT-5702-G3BP2 ternary complex==

== Structural highlights ==

<table><tr><td colspan='2'>[[9os2]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9OS2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=9OS2 FirstGlance]. <br>

</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 2.5Å</td></tr>

<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A1CED:(1~{S},3~{S})-~{N}-[[3-[2,4-bis(oxidanylidene)-1,3-diazinan-1-yl]imidazo[1,2-a]pyridin-7-yl]methyl]-2-[(2-chlorophenyl)methylsulfonyl]-1-methyl-3,4-dihydro-1~{H}-isoquinoline-3-carboxamide'>A1CED</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>

<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=9os2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9os2 OCA], [https://pdbe.org/9os2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=9os2 RCSB], [https://www.ebi.ac.uk/pdbsum/9os2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=9os2 ProSAT]</span></td></tr>

</table>

== Publication Abstract from PubMed ==

Molecular glue degraders (MGDs) are small-molecule compounds that divert E3 ligases to degrade nonnatural substrates called neosubstrates. Clinically effective MGDs bind cereblon (CRBN), a substrate receptor of the Cullin 4-RING E3 ubiquitin ligase (CRL4(CRBN)), and recruit neosubstrates to an MGD-induced neosurface on the CRBN CULT domain through molecular mimicry of a natural CRBN degron. Here, we identify G3BP2 (Ras-GAP SH3 domain-binding protein 2), a neosubstrate that bypasses canonical interactions with CRBN by engaging an unconventional binding site on the CRBN LON domain. The ternary complex interface does not resemble known interactions with CRBN. Instead, CRBN leverages a preexisting protein-protein interaction (PPI) hotspot on the target protein by mimicking an endogenous binding partner of G3BP2. Our findings suggest that composite neosurfaces that mimic and stabilize the footprint of natural PPIs (in short, 'glueprints') could become a viable strategy for the rational expansion of the MGD target repertoire.

~~Authors~~:

Cereblon induces G3BP2 neosubstrate degradation using molecular surface mimicry.,Annunziato S, Quan C, Donckele EJ, Lamberto I, Bunker RD, Zlotosch M, Schwander L, Murthy A, Wiedmer L, Staehly C, Matysik M, Gilberto S, Kapsitidou D, Wible D, De Donatis GM, Trenh P, SriRamaratnam R, Strande V, Lieberherr R, Lyon D, Steiner D, Silva J, Almeida R, Dolgikh E, DeMarco B, Tsai J, Sadok A, Zarayskiy V, Walter M, Tiedt R, Lumb KJ, Bonenfant D, Fasching B, Castle JC, Townson SA, Gainza P, Petzold G Nat Struct Mol Biol. 2026 Jan 20. doi: 10.1038/s41594-025-01738-8. PMID:41559416<ref>PMID:41559416</ref>

~~Description~~:

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>

[[Category: ~~Unreleased~~ Structures]]

</div>

== References ==

__TOC__

</StructureSection>

[[Category: Homo sapiens]]

[[Category: Large Structures]]

[[Category: Bunker RD]]

[[Category: Donckele EJ]]

[[Category: Gainza P]]

[[Category: Petzold G]]

[[Category: Quan C]]

[[Category: Tsai J]]

[[Category: Wiedmer L]]

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@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 9os2 is ON HOLD  until Paper Publication
+==Cryo-EM structure of the DDB1/CRBN-MRT-5702-G3BP2 ternary complex==
+<StructureSection load='9os2' size='340' side='right'caption='[[9os2]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[9os2]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9OS2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=9OS2 FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 2.5&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A1CED:(1~{S},3~{S})-~{N}-[[3-[2,4-bis(oxidanylidene)-1,3-diazinan-1-yl]imidazo[1,2-a]pyridin-7-yl]methyl]-2-[(2-chlorophenyl)methylsulfonyl]-1-methyl-3,4-dihydro-1~{H}-isoquinoline-3-carboxamide'>A1CED</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=9os2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9os2 OCA], [https://pdbe.org/9os2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=9os2 RCSB], [https://www.ebi.ac.uk/pdbsum/9os2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=9os2 ProSAT]</span></td></tr>
+</table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Molecular glue degraders (MGDs) are small-molecule compounds that divert E3 ligases to degrade nonnatural substrates called neosubstrates. Clinically effective MGDs bind cereblon (CRBN), a substrate receptor of the Cullin 4-RING E3 ubiquitin ligase (CRL4(CRBN)), and recruit neosubstrates to an MGD-induced neosurface on the CRBN CULT domain through molecular mimicry of a natural CRBN degron. Here, we identify G3BP2 (Ras-GAP SH3 domain-binding protein 2), a neosubstrate that bypasses canonical interactions with CRBN by engaging an unconventional binding site on the CRBN LON domain. The ternary complex interface does not resemble known interactions with CRBN. Instead, CRBN leverages a preexisting protein-protein interaction (PPI) hotspot on the target protein by mimicking an endogenous binding partner of G3BP2. Our findings suggest that composite neosurfaces that mimic and stabilize the footprint of natural PPIs (in short, 'glueprints') could become a viable strategy for the rational expansion of the MGD target repertoire.
-Authors:
+Cereblon induces G3BP2 neosubstrate degradation using molecular surface mimicry.,Annunziato S, Quan C, Donckele EJ, Lamberto I, Bunker RD, Zlotosch M, Schwander L, Murthy A, Wiedmer L, Staehly C, Matysik M, Gilberto S, Kapsitidou D, Wible D, De Donatis GM, Trenh P, SriRamaratnam R, Strande V, Lieberherr R, Lyon D, Steiner D, Silva J, Almeida R, Dolgikh E, DeMarco B, Tsai J, Sadok A, Zarayskiy V, Walter M, Tiedt R, Lumb KJ, Bonenfant D, Fasching B, Castle JC, Townson SA, Gainza P, Petzold G Nat Struct Mol Biol. 2026 Jan 20. doi: 10.1038/s41594-025-01738-8. PMID:41559416<ref>PMID:41559416</ref>
-Description:
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
+<div class="pdbe-citations 9os2" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Homo sapiens]]
+[[Category: Large Structures]]
+[[Category: Bunker RD]]
+[[Category: Donckele EJ]]
+[[Category: Gainza P]]
+[[Category: Petzold G]]
+[[Category: Quan C]]
+[[Category: Tsai J]]
+[[Category: Wiedmer L]]