6i3s - Revision history

OCA at 08:27, 6 March 2019

OCA — Wed, 06 Mar 2019 08:27:30 GMT

←Older revision		Revision as of 08:27, 6 March 2019
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	==Crystal structure of MDM2 in complex with compound 13.==		==Crystal structure of MDM2 in complex with compound 13.==
-	<StructureSection load='6i3s' size='340' side='right' caption='[[6i3s]], [[Resolution\|resolution]] 1.77Å' scene=''>	+	<StructureSection load='6i3s' size='340' side='right' caption='[[6i3s]], [[Resolution\|resolution]] 1.77Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6i3s]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6I3S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6I3S FirstGlance]. <br>		<table><tr><td colspan='2'>[[6i3s]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6I3S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6I3S FirstGlance]. <br>

OCA at 08:45, 26 December 2018

OCA — Wed, 26 Dec 2018 08:45:37 GMT

←Older revision		Revision as of 08:45, 26 December 2018
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	<StructureSection load='6i3s' size='340' side='right' caption='[[6i3s]], [[Resolution\|resolution]] 1.77Å' scene=''>		<StructureSection load='6i3s' size='340' side='right' caption='[[6i3s]], [[Resolution\|resolution]] 1.77Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6i3s]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6I3S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6I3S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6i3s]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6I3S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6I3S FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=H28:(3~{S},3~{R},3~{a}~{S},6~{a}~{R})-6-chloranyl-3-(3-chloranyl-2-fluoranyl-phenyl)-1-(cyclopropylmethyl)spiro[1~{H}-indole-3,2-3~{a},6~{a}-dihydro-3~{H}-pyrrolo[3,4-b]pyrrole]-2,4-dione'>H28</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=H28:(3~{S},3~{R},3~{a}~{S},6~{a}~{R})-6-chloranyl-3-(3-chloranyl-2-fluoranyl-phenyl)-1-(cyclopropylmethyl)spiro[1~{H}-indole-3,2-3~{a},6~{a}-dihydro-3~{H}-pyrrolo[3,4-b]pyrrole]-2,4-dione'>H28</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MDM2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RING-type_E3_ubiquitin_transferase RING-type E3 ubiquitin transferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.2.27 2.3.2.27] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RING-type_E3_ubiquitin_transferase RING-type E3 ubiquitin transferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.2.27 2.3.2.27] </span></td></tr>
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6i3s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6i3s OCA], [http://pdbe.org/6i3s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6i3s RCSB], [http://www.ebi.ac.uk/pdbsum/6i3s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6i3s ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6i3s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6i3s OCA], [http://pdbe.org/6i3s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6i3s RCSB], [http://www.ebi.ac.uk/pdbsum/6i3s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6i3s ProSAT]</span></td></tr>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: RING-type E3 ubiquitin transferase]]		[[Category: RING-type E3 ubiquitin transferase]]
	[[Category: Bader, G]]		[[Category: Bader, G]]

OCA at 08:31, 19 December 2018

OCA — Wed, 19 Dec 2018 08:31:36 GMT

←Older revision		Revision as of 08:31, 19 December 2018
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-	'''Unreleased structure'''

-	~~The entry~~ 6i3s is ~~ON HOLD~~	+	==Crystal structure of MDM2 in complex with compound 13.==
		+	<StructureSection load='6i3s' size='340' side='right' caption='[[6i3s]], [[Resolution\|resolution]] 1.77Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6i3s]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6I3S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6I3S FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=H28:(3~{S},3~{R},3~{a}~{S},6~{a}~{R})-6-chloranyl-3-(3-chloranyl-2-fluoranyl-phenyl)-1-(cyclopropylmethyl)spiro[1~{H}-indole-3,2-3~{a},6~{a}-dihydro-3~{H}-pyrrolo[3,4-b]pyrrole]-2,4-dione'>H28</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RING-type_E3_ubiquitin_transferase RING-type E3 ubiquitin transferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.2.27 2.3.2.27] </span></td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6i3s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6i3s OCA], [http://pdbe.org/6i3s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6i3s RCSB], [http://www.ebi.ac.uk/pdbsum/6i3s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6i3s ProSAT]</span></td></tr>
		+	</table>
		+	== Disease ==
		+	[[http://www.uniprot.org/uniprot/MDM2_HUMAN MDM2_HUMAN]] Note=Seems to be amplified in certain tumors (including soft tissue sarcomas, osteosarcomas and gliomas). A higher frequency of splice variants lacking p53 binding domain sequences was found in late-stage and high-grade ovarian and bladder carcinomas. Four of the splice variants show loss of p53 binding.
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MDM2_HUMAN MDM2_HUMAN]] E3 ubiquitin-protein ligase that mediates ubiquitination of p53/TP53, leading to its degradation by the proteasome. Inhibits p53/TP53- and p73/TP73-mediated cell cycle arrest and apoptosis by binding its transcriptional activation domain. Also acts as an ubiquitin ligase E3 toward itself and ARRB1. Permits the nuclear export of p53/TP53. Promotes proteasome-dependent ubiquitin-independent degradation of retinoblastoma RB1 protein. Inhibits DAXX-mediated apoptosis by inducing its ubiquitination and degradation. Component of the TRIM28/KAP1-MDM2-p53/TP53 complex involved in stabilizing p53/TP53. Also component of the TRIM28/KAP1-ERBB4-MDM2 complex which links growth factor and DNA damage response pathways. Mediates ubiquitination and subsequent proteasome degradation of DYRK2 in nucleus. Ubiquitinates IGF1R and promotes it to proteasomal degradation.<ref>PMID:12821780</ref> <ref>PMID:15053880</ref> <ref>PMID:15195100</ref> <ref>PMID:16337594</ref> <ref>PMID:15632057</ref> <ref>PMID:17290220</ref> <ref>PMID:19098711</ref> <ref>PMID:19219073</ref> <ref>PMID:19965871</ref> <ref>PMID:20858735</ref> <ref>PMID:20173098</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Mouse double minute 2 (MDM2) is a main and direct inhibitor of the crucial tumor suppressor p53. Reports from initial clinical trials showed that blocking this interaction with a small-molecule inhibitor can have great value in the treatment of cancer for patients with p53 wild-type tumors; however, it also revealed dose-limiting hematological toxicities and drug-induced resistance as main issues. To overcome the former, an inhibitor with superior potency and pharmacokinetic properties to ultimately achieve full efficacy with less-frequent dosing schedules is required. Toward this aim, we optimized our recently reported spiro-oxindole inhibitors by focusing on the crucial interaction with the amino acid side chain of His96MDM2 . The designed molecules required the targeted synthesis of structurally complex spiro[indole-3,2'-pyrrolo[2,3-c]pyrrole]-2,4'-diones for which we developed an unprecedented intramolecular azomethine ylide cycloaddition and investigated the results by computational methods. One of the new compounds showed superior cellular potency over previously reported BI-0252. This finding is a significant step toward an inhibitor suitable to potentially mitigate hematological on-target adverse effects.

-	~~Authors~~:	+	Targeted Synthesis of Complex Spiro[3H-indole-3,2'-pyrrolidin]-2(1H)-ones by Intramolecular Cyclization of Azomethine Ylides: Highly Potent MDM2-p53 Inhibitors.,Gollner A, Weinstabl H, Fuchs JE, Rudolph D, Garavel G, Hofbauer KS, Karolyi-Oezguer J, Gmaschitz G, Hela W, Kerres N, Grondal E, Werni P, Ramharter J, Broeker J, McConnell DB ChemMedChem. 2018 Nov 20. doi: 10.1002/cmdc.201800617. PMID:30458062<ref>PMID:30458062</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 6i3s" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: RING-type E3 ubiquitin transferase]]
		+	[[Category: Bader, G]]
		+	[[Category: Kessler, D]]
		+	[[Category: Inhibitor]]
		+	[[Category: Ligase]]

OCA: Protected "6i3s" [edit=sysop:move=sysop]

OCA — Wed, 14 Nov 2018 06:22:03 GMT

Protected "6i3s" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:22, 14 November 2018

OCA: New page: '''Unreleased structure''' The entry 6i3s is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 14 Nov 2018 06:22:01 GMT

New page: '''Unreleased structure''' The entry 6i3s is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6i3s is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]