2p1h - Revision history

OCA at 10:52, 30 August 2023

OCA — Wed, 30 Aug 2023 10:52:32 GMT

←Older revision		Revision as of 10:52, 30 August 2023
Line 3:		Line 3:
	<StructureSection load='2p1h' size='340' side='right'caption='[[2p1h]], [[Resolution\|resolution]] 1.59Å' scene=''>		<StructureSection load='2p1h' size='340' side='right'caption='[[2p1h]], [[Resolution\|resolution]] 1.59Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2p1h]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human Human~~]. The September 2014 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Apoptosomes'' by David Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2014_9 10.2210/rcsb_pdb/mom_2014_9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2P1H FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2p1h]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. The September 2014 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Apoptosomes'' by David Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2014_9 10.2210/rcsb_pdb/mom_2014_9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2P1H FirstGlance]. <br>
-	</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>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.59Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~APAF1 ([https~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])~~</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=2p1h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1h OCA], [https://pdbe.org/2p1h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2p1h RCSB], [https://www.ebi.ac.uk/pdbsum/2p1h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2p1h ProSAT]</span></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=2p1h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1h OCA], [https://pdbe.org/2p1h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2p1h RCSB], [https://www.ebi.ac.uk/pdbsum/2p1h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2p1h ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/APAF_HUMAN APAF_HUMAN]] Oligomeric Apaf-1 mediates the cytochrome c-dependent autocatalytic activation of pro-caspase-9 (Apaf-3), leading to the activation of caspase-3 and apoptosis. This activation requires ATP. Isoform 6 is less effective in inducing apoptosis.<ref>PMID:10393175</ref> <ref>PMID:12804598</ref>	+	[https://www.uniprot.org/uniprot/APAF_HUMAN APAF_HUMAN] Oligomeric Apaf-1 mediates the cytochrome c-dependent autocatalytic activation of pro-caspase-9 (Apaf-3), leading to the activation of caspase-3 and apoptosis. This activation requires ATP. Isoform 6 is less effective in inducing apoptosis.<ref>PMID:10393175</ref> <ref>PMID:12804598</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 37:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Apoptosomes]]		[[Category: Apoptosomes]]
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: RCSB PDB Molecule of the Month]]		[[Category: RCSB PDB Molecule of the Month]]
-	[[Category: Clark~~, A C~~]]	+	[[Category: Clark AC]]
-	[[Category: Feeney, B]]	+	[[Category: Feeney B]]
-	[[Category: Mattos, C]]	+	[[Category: Mattos C]]
-	[[Category: Milam~~, S L~~]]	+	[[Category: Milam SL]]
-	[[Category: Nicely~~, N I]]~~	+	[[Category: Nicely NI]]
-	~~[[Category: Apaf-1]]~~	+
-	~~[[Category: Apoptosis]]~~	+
-	~~[[Category: Folding]]~~	+
-	~~[[Category: Unfolding~~]]	+

OCA at 13:11, 9 June 2021

OCA — Wed, 09 Jun 2021 13:11:49 GMT

←Older revision		Revision as of 13:11, 9 June 2021
Line 1:		Line 1:

	==Rapid Folding and Unfolding of Apaf-1 CARD==		==Rapid Folding and Unfolding of Apaf-1 CARD==
-	<StructureSection load='2p1h' size='340' side='right' caption='[[2p1h]], [[Resolution\|resolution]] 1.59Å' scene=''>	+	<StructureSection load='2p1h' size='340' side='right'caption='[[2p1h]], [[Resolution\|resolution]] 1.59Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2p1h]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Human Human]. The September 2014 RCSB PDB [~~http~~://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Apoptosomes'' by David Goodsell is [~~http~~://dx.doi.org/10.2210/rcsb_pdb/mom_2014_9 10.2210/rcsb_pdb/mom_2014_9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1H OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2P1H FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2p1h]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. The September 2014 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Apoptosomes'' by David Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2014_9 10.2210/rcsb_pdb/mom_2014_9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2P1H 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='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='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">APAF1 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">APAF1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=2p1h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1h OCA], [~~http~~://pdbe.org/2p1h PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2p1h RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2p1h PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2p1h ProSAT]</span></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=2p1h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1h OCA], [https://pdbe.org/2p1h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2p1h RCSB], [https://www.ebi.ac.uk/pdbsum/2p1h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2p1h ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/APAF_HUMAN APAF_HUMAN]] Oligomeric Apaf-1 mediates the cytochrome c-dependent autocatalytic activation of pro-caspase-9 (Apaf-3), leading to the activation of caspase-3 and apoptosis. This activation requires ATP. Isoform 6 is less effective in inducing apoptosis.<ref>PMID:10393175</ref> <ref>PMID:12804598</ref>	+	[[https://www.uniprot.org/uniprot/APAF_HUMAN APAF_HUMAN]] Oligomeric Apaf-1 mediates the cytochrome c-dependent autocatalytic activation of pro-caspase-9 (Apaf-3), leading to the activation of caspase-3 and apoptosis. This activation requires ATP. Isoform 6 is less effective in inducing apoptosis.<ref>PMID:10393175</ref> <ref>PMID:12804598</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/p1/2p1h_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/p1/2p1h_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 29:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 2p1h" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2p1h" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Apoptotic protease-activating factor-1 3D structures\|Apoptotic protease-activating factor-1 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 35:		Line 38:
	[[Category: Apoptosomes]]		[[Category: Apoptosomes]]
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: RCSB PDB Molecule of the Month]]		[[Category: RCSB PDB Molecule of the Month]]
	[[Category: Clark, A C]]		[[Category: Clark, A C]]

OCA at 09:16, 18 October 2017

OCA — Wed, 18 Oct 2017 09:16:24 GMT

←Older revision		Revision as of 09:16, 18 October 2017
Line 1:		Line 1:
		+
	==Rapid Folding and Unfolding of Apaf-1 CARD==		==Rapid Folding and Unfolding of Apaf-1 CARD==
	<StructureSection load='2p1h' size='340' side='right' caption='[[2p1h]], [[Resolution\|resolution]] 1.59Å' scene=''>		<StructureSection load='2p1h' size='340' side='right' caption='[[2p1h]], [[Resolution\|resolution]] 1.59Å' scene=''>
Line 5:		Line 6:
	</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='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">APAF1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">APAF1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=2p1h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1h OCA], [http://pdbe.org/2p1h PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2p1h RCSB], [http://www.ebi.ac.uk/pdbsum/2p1h PDBsum]</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=2p1h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1h OCA], [http://pdbe.org/2p1h PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2p1h RCSB], [http://www.ebi.ac.uk/pdbsum/2p1h PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2p1h ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 04:32, 10 February 2016

OCA — Wed, 10 Feb 2016 04:32:17 GMT

←Older revision		Revision as of 04:32, 10 February 2016
Line 17:		Line 17:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2p1h ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 05:24, 11 September 2015

OCA — Fri, 11 Sep 2015 05:24:44 GMT

←Older revision		Revision as of 05:24, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2p1h' size='340' side='right' caption='[[2p1h]], [[Resolution\|resolution]] 1.59Å' scene=''>		<StructureSection load='2p1h' size='340' side='right' caption='[[2p1h]], [[Resolution\|resolution]] 1.59Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2p1h]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~]. The September 2014 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Apoptosomes'' by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2014_9 10.2210/rcsb_pdb/mom_2014_9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2P1H FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2p1h]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. The September 2014 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Apoptosomes'' by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2014_9 10.2210/rcsb_pdb/mom_2014_9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2P1H 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='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">APAF1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 ~~Homo sapiens~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">APAF1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=2p1h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1h OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2p1h RCSB], [http://www.ebi.ac.uk/pdbsum/2p1h PDBsum]</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=2p1h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1h OCA], [http://pdbe.org/2p1h PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2p1h RCSB], [http://www.ebi.ac.uk/pdbsum/2p1h PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 27:		Line 27:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 2p1h" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
Line 32:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Apoptosomes]]		[[Category: Apoptosomes]]
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: RCSB PDB Molecule of the Month]]		[[Category: RCSB PDB Molecule of the Month]]
	[[Category: Clark, A C]]		[[Category: Clark, A C]]

OCA at 11:48, 25 December 2014

OCA — Thu, 25 Dec 2014 11:48:55 GMT

←Older revision		Revision as of 11:48, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2p1h]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. The September 2014 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Apoptosomes'' by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2014_9 10.2210/rcsb_pdb/mom_2014_9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2P1H FirstGlance]. <br>		<table><tr><td colspan='2'>[[2p1h]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. The September 2014 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Apoptosomes'' by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2014_9 10.2210/rcsb_pdb/mom_2014_9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2P1H FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><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>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">APAF1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">APAF1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2p1h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1h OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2p1h RCSB], [http://www.ebi.ac.uk/pdbsum/2p1h PDBsum]</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=2p1h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1h OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2p1h RCSB], [http://www.ebi.ac.uk/pdbsum/2p1h PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/APAF_HUMAN APAF_HUMAN]] Oligomeric Apaf-1 mediates the cytochrome c-dependent autocatalytic activation of pro-caspase-9 (Apaf-3), leading to the activation of caspase-3 and apoptosis. This activation requires ATP. Isoform 6 is less effective in inducing apoptosis.<ref>PMID:10393175</ref> <ref>PMID:12804598</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 34:
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: RCSB PDB Molecule of the Month]]		[[Category: RCSB PDB Molecule of the Month]]
-	[[Category: Clark, A C.]]	+	[[Category: Clark, A C]]
-	[[Category: Feeney, B.]]	+	[[Category: Feeney, B]]
-	[[Category: Mattos, C.]]	+	[[Category: Mattos, C]]
-	[[Category: Milam, S L.]]	+	[[Category: Milam, S L]]
-	[[Category: Nicely, N I.]]	+	[[Category: Nicely, N I]]
	[[Category: Apaf-1]]		[[Category: Apaf-1]]
	[[Category: Apoptosis]]		[[Category: Apoptosis]]
	[[Category: Folding]]		[[Category: Folding]]
	[[Category: Unfolding]]		[[Category: Unfolding]]

OCA at 18:44, 30 September 2014

OCA — Tue, 30 Sep 2014 18:44:08 GMT

←Older revision		Revision as of 18:44, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2p1h.~~png~~\|~~left~~\|200px]]	+	==Rapid Folding and Unfolding of Apaf-1 CARD==
		+	<StructureSection load='2p1h' size='340' side='right' caption='[[2p1h]], [[Resolution\|resolution]] 1.59Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2p1h]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. The September 2014 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Apoptosomes'' by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2014_9 10.2210/rcsb_pdb/mom_2014_9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2P1H FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">APAF1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2p1h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p1h OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2p1h RCSB], [http://www.ebi.ac.uk/pdbsum/2p1h PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/p1/2p1h_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Caspase recruitment domains (CARDs) are members of the death domain superfamily and contain six antiparallel helices in an alpha-helical Greek key topology. We have examined the equilibrium and kinetic folding of the CARD of Apaf-1 (apoptotic protease activating factor 1), which consists of 97 amino acid residues, at pH 6 and pH 8. The results showed that an apparent two state equilibrium mechanism is not adequate to describe the folding of Apaf-1 CARD at either pH, suggesting the presence of intermediates in equilibrium unfolding. Interestingly, the results showed that the secondary structure is less stable than the tertiary structure, based on the transition mid-points for unfolding. Single mixing and sequential mixing stopped-flow studies showed that Apaf-1 CARD folds and unfolds rapidly and suggest a folding mechanism that contains parallel channels with two unfolded conformations folding to the native conformation. Kinetic simulations show that a slow folding phase is described by a third conformation in the unfolded ensemble that interconverts with one or both unfolded species. Overall, the native ensemble is formed rapidly upon refolding. This is in contrast to other CARDs in which folding appears to be dominated by formation of kinetic traps.

-	~~{{STRUCTURE_2p1h\| PDB=2p1h \| SCENE= }}~~	+	Rapid folding and unfolding of Apaf-1 CARD.,Milam SL, Nicely NI, Feeney B, Mattos C, Clark AC J Mol Biol. 2007 May 25;369(1):290-304. Epub 2007 Mar 15. PMID:17408690<ref>PMID:17408690</ref>

-	~~===Rapid Folding and Unfolding~~ of ~~Apaf-1 CARD===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17408690}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2p1h]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Homo_sapiens Homo sapiens]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2P1H OCA].~~	+	</StructureSection>
-		+	[[Category: Apoptosomes]]
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:017408690<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
		+	[[Category: RCSB PDB Molecule of the Month]]
	[[Category: Clark, A C.]]		[[Category: Clark, A C.]]
	[[Category: Feeney, B.]]		[[Category: Feeney, B.]]

OCA: Protected "2p1h" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 11:01:21 GMT

Protected "2p1h" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:01, 7 January 2013

OCA at 11:01, 7 January 2013

OCA — Mon, 07 Jan 2013 11:01:19 GMT

←Older revision		Revision as of 11:01, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2p1h.png\|left\|200px]]		[[Image:2p1h.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2p1h", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_2p1h\| PDB=2p1h \| SCENE= }}		{{STRUCTURE_2p1h\| PDB=2p1h \| SCENE= }}

	===Rapid Folding and Unfolding of Apaf-1 CARD===		===Rapid Folding and Unfolding of Apaf-1 CARD===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17408690}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17408690 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17408690}}		{{ABSTRACT_PUBMED_17408690}}

	==About this Structure==		==About this Structure==
-	~~2P1H~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1H OCA].	+	[[2p1h]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1H OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17408690~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017408690</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Clark, A C.]]		[[Category: Clark, A C.]]
Line 31:		Line 19:
	[[Category: Nicely, N I.]]		[[Category: Nicely, N I.]]
	[[Category: Apaf-1]]		[[Category: Apaf-1]]
		+	[[Category: Apoptosis]]
	[[Category: Folding]]		[[Category: Folding]]
	[[Category: Unfolding]]		[[Category: Unfolding]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 15:27:29 2009''

OCA at 13:27, 17 February 2009

OCA — Tue, 17 Feb 2009 13:27:32 GMT

←Older revision		Revision as of 13:27, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2P1H is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1H OCA].	+	2P1H is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P1H OCA].

	==Reference==		==Reference==
-	~~Rapid folding and unfolding of Apaf-1 CARD., Milam SL, Nicely NI, Feeney B, Mattos C, Clark AC, J Mol Biol. 2007 May 25;369(1):290-304. Epub 2007 Mar 15.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/17408690 17408690]~~	+	<ref group="xtra">PMID:17408690</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Single protein]]
	[[Category: Clark, A C.]]		[[Category: Clark, A C.]]
	[[Category: Feeney, B.]]		[[Category: Feeney, B.]]
Line 35:		Line 34:
	[[Category: Unfolding]]		[[Category: Unfolding]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Jul 28 21~~:07:~~01 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 15:27:29 2009''