6qfi - Revision history

OCA at 11:59, 24 January 2024

OCA — Wed, 24 Jan 2024 11:59:21 GMT

←Older revision		Revision as of 11:59, 24 January 2024
Line 3:		Line 3:
	<StructureSection load='6qfi' size='340' side='right'caption='[[6qfi]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='6qfi' size='340' side='right'caption='[[6qfi]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6qfi]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QFI OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6QFI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6qfi]] is a 2 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=6QFI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6QFI FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.4Å</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=6qfi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qfi OCA], [~~http~~://pdbe.org/6qfi PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6qfi RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6qfi PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6qfi ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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=6qfi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qfi OCA], [https://pdbe.org/6qfi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6qfi RCSB], [https://www.ebi.ac.uk/pdbsum/6qfi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6qfi ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/MCL1_HUMAN MCL1_HUMAN]] Involved in the regulation of apoptosis versus cell survival, and in the maintenance of viability but not of proliferation. Mediates its effects by interactions with a number of other regulators of apoptosis. Isoform 1 inhibits apoptosis. Isoform 2 promotes apoptosis.<ref>PMID:10766760</ref> ~~[[http~~:~~//www~~.~~uniprot~~.~~org/uniprot/B2L11_HUMAN B2L11_HUMAN]] Induces apoptosis~~ and ~~anoikis~~. ~~Isoform BimL is more potent than isoform BimEL. Isoform Bim~~-~~alpha1, isoform Bim-alpha2~~ and ~~isoform Bim~~-~~alpha3 induce apoptosis~~, ~~although less potent than isoform BimEL~~, ~~isoform BimL~~ and ~~isoform BimS~~. ~~Isoform Bim-gamma induces apoptosis~~. ~~Isoform Bim~~-~~alpha3 induces apoptosis possibly through~~ a ~~caspase-mediated pathway~~. ~~Isoform BimAC~~ and ~~isoform BimABC lack~~ the ~~ability~~ to ~~induce apoptosis~~.~~<ref>PMID~~:~~9430630<~~/~~ref> <ref>~~PMID:~~11734221</ref>~~ <ref>PMID:~~12019181~~</ref> <~~ref~~>~~PMID:11997495~~</~~ref~~> <~~ref>PMID~~:~~15147734</ref~~> ~~<ref>PMID:15486195~~</~~ref~~>	+	[https://www.uniprot.org/uniprot/MCL1_HUMAN MCL1_HUMAN] Involved in the regulation of apoptosis versus cell survival, and in the maintenance of viability but not of proliferation. Mediates its effects by interactions with a number of other regulators of apoptosis. Isoform 1 inhibits apoptosis. Isoform 2 promotes apoptosis.<ref>PMID:10766760</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	We describe our work to establish structure- and fragment-based drug discovery to identify small molecules that inhibit the anti-apoptotic activity of the proteins Mcl-1 and Bcl-2. This identified hit series of compounds, some of which were subsequently optimized to clinical candidates in trials for treating various cancers. Many protein constructs were designed to identify protein with suitable properties for different biophysical assays and structural methods. Fragment screening using ligand-observed NMR experiments identified several series of compounds for each protein. The series were assessed for their potential for subsequent optimization using (1)H and (15)N heteronuclear single-quantum correlation NMR, surface plasmon resonance, and isothermal titration calorimetry measurements to characterize and validate binding. Crystal structures could not be determined for the early hits, so NMR methods were developed to provide models of compound binding to guide compound optimization. For Mcl-1, a benzodioxane/benzoxazine series was optimized to a K (d) of 40 muM before a thienopyrimidine hit series was identified which subsequently led to the lead series from which the clinical candidate S 64315 (MIK 665) was identified. For Bcl-2, the fragment-derived series were difficult to progress, and a compound derived from a published tetrahydroquinone compound was taken forward as the hit from which the clinical candidate (S 55746) was obtained. For both the proteins, the work to establish a portfolio of assays gave confidence for identification of compounds suitable for optimization.
		+
		+	Establishing Drug Discovery and Identification of Hit Series for the Anti-apoptotic Proteins, Bcl-2 and Mcl-1.,Murray JB, Davidson J, Chen I, Davis B, Dokurno P, Graham CJ, Harris R, Jordan A, Matassova N, Pedder C, Ray S, Roughley SD, Smith J, Walmsley C, Wang Y, Whitehead N, Williamson DS, Casara P, Le Diguarher T, Hickman J, Stark J, Kotschy A, Geneste O, Hubbard RE ACS Omega. 2019 May 23;4(5):8892-8906. doi: 10.1021/acsomega.9b00611. eCollection , 2019 May 31. PMID:31459977<ref>PMID:31459977</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6qfi" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[B-cell lymphoma proteins 3D structures\|B-cell lymphoma proteins 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Casara, P]]	+	[[Category: Casara P]]
-	[[Category: Chen, I]]	+	[[Category: Chen I]]
-	[[Category: Davidson, J]]	+	[[Category: Davidson J]]
-	[[Category: Davis, B]]	+	[[Category: Davis B]]
-	~~[[Category: Diguarher, T Le~~]]	+	[[Category: Dokurno P]]
-	[[Category: Dokurno, P]]	+	[[Category: Geneste O]]
-	[[Category: Geneste, O]]	+	[[Category: Graham CJ]]
-	[[Category: Graham~~, C J~~]]	+	[[Category: Harris R]]
-	[[Category: Harris, R]]	+	[[Category: Hickman J]]
-	[[Category: Hickman, J]]	+	[[Category: Hubbard RE]]
-	[[Category: Hubbard~~, R E~~]]	+	[[Category: Jordan AM]]
-	[[Category: Jordan~~, A M~~]]	+	[[Category: Kotschy A]]
-	[[Category: Kotschy, A]]	+	[[Category: Le Diguarher T]]
-	[[Category: Matassova, N]]	+	[[Category: Matassova N]]
-	[[Category: Murray, J]]	+	[[Category: Murray J]]
-	[[Category: Pedder, C]]	+	[[Category: Pedder C]]
-	[[Category: Ray, S]]	+	[[Category: Ray S]]
-	[[Category: Roughley, S]]	+	[[Category: Roughley S]]
-	[[Category: Smith, J]]	+	[[Category: Smith J]]
-	[[Category: Stark, J]]	+	[[Category: Stark J]]
-	[[Category: Walmsley, C]]	+	[[Category: Walmsley C]]
-	[[Category: Wang, Y]]	+	[[Category: Wang Y]]
-	[[Category: Whitehead, N]]	+	[[Category: Whitehead N]]
-	[[Category: Williamson~~, D S]]~~	+	[[Category: Williamson DS]]
-	~~[[Category: Apoptosis]]~~	+
-	~~[[Category: Bcl2]]~~	+
-	~~[[Category: Bim]]~~	+
-	~~[[Category: Mcl1~~]]	+

OCA at 05:45, 12 June 2019

OCA — Wed, 12 Jun 2019 05:45:44 GMT

←Older revision		Revision as of 05:45, 12 June 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6qfi is ~~ON HOLD until Paper Publication~~	+	==Structure of human Mcl-1 in complex with BIM BH3 peptide==
-		+	<StructureSection load='6qfi' size='340' side='right'caption='[[6qfi]], [[Resolution\|resolution]] 2.40Å' scene=''>
-	~~Authors~~: ~~Dokurno, P~~.~~, Murray, J~~.~~, Davidson, J~~.~~, Chen, I~~., ~~Davis, B~~.~~, Graham, C~~.J., ~~Harris, R~~., ~~Jordan, A~~.M.~~, Matassova, N~~., ~~Pedder, C~~.~~, Ray, S~~.~~, Roughley, S~~., ~~Smith, J~~.~~, Walmsley, C~~.~~, Wang, Y~~.~~, Whitehead, N~~., ~~Williamson, D~~.S.~~, Casara, P~~.~~, Le Diguarher, T~~.~~, Hickman, J~~.~~, Stark, J~~.~~, Kotschy, A~~.~~, Geneste, O~~., ~~Hubbard~~, R.E.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6qfi]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QFI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6QFI FirstGlance]. <br>
-	~~Description: Structure of human Mcl-1 in complex with BIM BH3 peptide~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<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=6qfi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qfi OCA], [http://pdbe.org/6qfi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qfi RCSB], [http://www.ebi.ac.uk/pdbsum/6qfi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qfi ProSAT]</span></td></tr>
-	[[Category: ~~Pedder~~, C]]	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MCL1_HUMAN MCL1_HUMAN]] Involved in the regulation of apoptosis versus cell survival, and in the maintenance of viability but not of proliferation. Mediates its effects by interactions with a number of other regulators of apoptosis. Isoform 1 inhibits apoptosis. Isoform 2 promotes apoptosis.<ref>PMID:10766760</ref> [[http://www.uniprot.org/uniprot/B2L11_HUMAN B2L11_HUMAN]] Induces apoptosis and anoikis. Isoform BimL is more potent than isoform BimEL. Isoform Bim-alpha1, isoform Bim-alpha2 and isoform Bim-alpha3 induce apoptosis, although less potent than isoform BimEL, isoform BimL and isoform BimS. Isoform Bim-gamma induces apoptosis. Isoform Bim-alpha3 induces apoptosis possibly through a caspase-mediated pathway. Isoform BimAC and isoform BimABC lack the ability to induce apoptosis.<ref>PMID:9430630</ref> <ref>PMID:11734221</ref> <ref>PMID:12019181</ref> <ref>PMID:11997495</ref> <ref>PMID:15147734</ref> <ref>PMID:15486195</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Casara, P]]
	[[Category: Chen, I]]		[[Category: Chen, I]]
-	[[Category: Williamson, D.S]]
-	[[Category: Smith, J]]
-	[[Category: Le Diguarher, T]]
-	[[Category: Matassova, N]]
	[[Category: Davidson, J]]		[[Category: Davidson, J]]
-	[[Category: Wang, Y]]
-	[[Category: Roughley, S]]
-	[[Category: Walmsley, C]]
-	[[Category: Graham, C.J]]
-	[[Category: Hubbard, R.E]]
	[[Category: Davis, B]]		[[Category: Davis, B]]
		+	[[Category: Diguarher, T Le]]
		+	[[Category: Dokurno, P]]
		+	[[Category: Geneste, O]]
		+	[[Category: Graham, C J]]
		+	[[Category: Harris, R]]
	[[Category: Hickman, J]]		[[Category: Hickman, J]]
		+	[[Category: Hubbard, R E]]
		+	[[Category: Jordan, A M]]
		+	[[Category: Kotschy, A]]
		+	[[Category: Matassova, N]]
		+	[[Category: Murray, J]]
		+	[[Category: Pedder, C]]
		+	[[Category: Ray, S]]
		+	[[Category: Roughley, S]]
		+	[[Category: Smith, J]]
	[[Category: Stark, J]]		[[Category: Stark, J]]
		+	[[Category: Walmsley, C]]
		+	[[Category: Wang, Y]]
	[[Category: Whitehead, N]]		[[Category: Whitehead, N]]
-	[[Category: ~~Jordan~~, ~~A.M~~]]	+	[[Category: Williamson, D S]]
-	[[Category: ~~Harris, R~~]]	+	[[Category: Apoptosis]]
-	[[Category: ~~Murray, J~~]]	+	[[Category: Bcl2]]
-	[[Category: ~~Dokurno, P~~]]	+	[[Category: Bim]]
-	[[Category: ~~Kotschy, A]]~~	+	[[Category: Mcl1]]
-	~~[[Category: Casara, P]]~~	+
-	~~[[Category: Geneste, O]]~~	+
-	~~[[Category: Ray, S~~]]	+

OCA at 06:53, 30 January 2019

OCA — Wed, 30 Jan 2019 06:53:24 GMT

←Older revision		Revision as of 06:53, 30 January 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6qfi is ON HOLD	+	The entry 6qfi is ON HOLD until Paper Publication

	Authors: Dokurno, P., Murray, J., Davidson, J., Chen, I., Davis, B., Graham, C.J., Harris, R., Jordan, A.M., Matassova, N., Pedder, C., Ray, S., Roughley, S., Smith, J., Walmsley, C., Wang, Y., Whitehead, N., Williamson, D.S., Casara, P., Le Diguarher, T., Hickman, J., Stark, J., Kotschy, A., Geneste, O., Hubbard, R.E.		Authors: Dokurno, P., Murray, J., Davidson, J., Chen, I., Davis, B., Graham, C.J., Harris, R., Jordan, A.M., Matassova, N., Pedder, C., Ray, S., Roughley, S., Smith, J., Walmsley, C., Wang, Y., Whitehead, N., Williamson, D.S., Casara, P., Le Diguarher, T., Hickman, J., Stark, J., Kotschy, A., Geneste, O., Hubbard, R.E.

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

OCA — Wed, 16 Jan 2019 10:51:34 GMT

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

←Older revision

Revision as of 10:51, 16 January 2019

OCA: New page: '''Unreleased structure''' The entry 6qfi is ON HOLD Authors: Dokurno, P., Murray, J., Davidson, J., Chen, I., Davis, B., Graham, C.J., Harris, R., Jordan, A.M., Matassova, N., Pedder, ...

OCA — Wed, 16 Jan 2019 10:51:33 GMT

New page: '''Unreleased structure''' The entry 6qfi is ON HOLD Authors: Dokurno, P., Murray, J., Davidson, J., Chen, I., Davis, B., Graham, C.J., Harris, R., Jordan, A.M., Matassova, N., Pedder, ...

New page

'''Unreleased structure'''

The entry 6qfi is ON HOLD

Authors: Dokurno, P., Murray, J., Davidson, J., Chen, I., Davis, B., Graham, C.J., Harris, R., Jordan, A.M., Matassova, N., Pedder, C., Ray, S., Roughley, S., Smith, J., Walmsley, C., Wang, Y., Whitehead, N., Williamson, D.S., Casara, P., Le Diguarher, T., Hickman, J., Stark, J., Kotschy, A., Geneste, O., Hubbard, R.E.

Description: Structure of human Mcl-1 in complex with BIM BH3 peptide
[[Category: Unreleased Structures]]
[[Category: Pedder, C]]
[[Category: Chen, I]]
[[Category: Williamson, D.S]]
[[Category: Smith, J]]
[[Category: Le Diguarher, T]]
[[Category: Matassova, N]]
[[Category: Davidson, J]]
[[Category: Wang, Y]]
[[Category: Roughley, S]]
[[Category: Walmsley, C]]
[[Category: Graham, C.J]]
[[Category: Hubbard, R.E]]
[[Category: Davis, B]]
[[Category: Hickman, J]]
[[Category: Stark, J]]
[[Category: Whitehead, N]]
[[Category: Jordan, A.M]]
[[Category: Harris, R]]
[[Category: Murray, J]]
[[Category: Dokurno, P]]
[[Category: Kotschy, A]]
[[Category: Casara, P]]
[[Category: Geneste, O]]
[[Category: Ray, S]]