3boa - Revision history

OCA at 12:11, 30 August 2023

OCA — Wed, 30 Aug 2023 12:11:15 GMT

←Older revision		Revision as of 12:11, 30 August 2023
Line 3:		Line 3:
	<StructureSection load='3boa' size='340' side='right'caption='[[3boa]], [[Resolution\|resolution]] 3.70Å' scene=''>		<StructureSection load='3boa' size='340' side='right'caption='[[3boa]], [[Resolution\|resolution]] 3.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3boa]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Saccharomyces_cerevisiae~~ Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BOA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BOA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3boa]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_W303 Saccharomyces cerevisiae W303]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BOA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BOA FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[2b5e\|2b5e]], [[1mek\|1mek]], [[2bjx\|2bjx]], [[2h8i\|2h8i]], [[1eej\|1eej]], [[1dsb\|1dsb]]</div></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]] 3.7Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">PDI1, MFP1, TRG1 ([https://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=4932 Saccharomyces cerevisiae])</td></tr>~~	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Protein_disulfide-isomerase Protein disulfide-isomerase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.4.1 5.3.4.1] </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=3boa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3boa OCA], [https://pdbe.org/3boa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3boa RCSB], [https://www.ebi.ac.uk/pdbsum/3boa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3boa 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=3boa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3boa OCA], [https://pdbe.org/3boa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3boa RCSB], [https://www.ebi.ac.uk/pdbsum/3boa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3boa ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/PDI_YEAST PDI_YEAST]] Protein disulfide isomerase of ER lumen required for formation of disulfide bonds in secretory and cell-surface proteins and which unscrambles non-native disulfide bonds. Forms a complex with MNL1 to process unfolded protein-bound Man8GlcNAc2 oligosaccharides to Man7GlcNAc2, promoting degradation in unfolded protein response.<ref>PMID:16002399</ref> <ref>PMID:19124653</ref> <ref>PMID:21700223</ref>	+	[https://www.uniprot.org/uniprot/PDI_YEAST PDI_YEAST] Protein disulfide isomerase of ER lumen required for formation of disulfide bonds in secretory and cell-surface proteins and which unscrambles non-native disulfide bonds. Forms a complex with MNL1 to process unfolded protein-bound Man8GlcNAc2 oligosaccharides to Man7GlcNAc2, promoting degradation in unfolded protein response.<ref>PMID:16002399</ref> <ref>PMID:19124653</ref> <ref>PMID:21700223</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Protein disulfide-isomerase]]~~	+	[[Category: Saccharomyces cerevisiae W303]]
-	[[Category: Saccharomyces cerevisiae]]	+	[[Category: Lennarz WJ]]
-	[[Category: Lennarz~~, W J~~]]	+	[[Category: Schindelin H]]
-	[[Category: Schindelin, H]]	+	[[Category: Tian G]]
-	[[Category: Tian, G]]	+
-	~~[[Category: Disulfide bond formation]]~~	+
-	~~[[Category: Endoplasmic reticulum]]~~	+
-	~~[[Category: Glycoprotein]]~~	+
-	~~[[Category: Isomerase]]~~	+
-	~~[[Category: Molecular flexibility]]~~	+
-	~~[[Category: Protein folding]]~~	+
-	~~[[Category: Redox-active center]]~~	+
-	~~[[Category: Thioredoxin~~]]	+

OCA at 08:20, 19 January 2022

OCA — Wed, 19 Jan 2022 08:20:24 GMT

←Older revision		Revision as of 08:20, 19 January 2022
Line 1:		Line 1:

	==Crystal structure of yeast protein disulfide isomerase.==		==Crystal structure of yeast protein disulfide isomerase.==
-	<StructureSection load='3boa' size='340' side='right' caption='[[3boa]], [[Resolution\|resolution]] 3.70Å' scene=''>	+	<StructureSection load='3boa' size='340' side='right'caption='[[3boa]], [[Resolution\|resolution]] 3.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3boa]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BOA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3BOA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3boa]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BOA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BOA FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b5e\|2b5e]], [[1mek\|1mek]], [[2bjx\|2bjx]], [[2h8i\|2h8i]], [[1eej\|1eej]], [[1dsb\|1dsb]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2b5e\|2b5e]], [[1mek\|1mek]], [[2bjx\|2bjx]], [[2h8i\|2h8i]], [[1eej\|1eej]], [[1dsb\|1dsb]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PDI1, MFP1, TRG1 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PDI1, MFP1, TRG1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Protein_disulfide-isomerase Protein disulfide-isomerase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.4.1 5.3.4.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Protein_disulfide-isomerase Protein disulfide-isomerase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.4.1 5.3.4.1] </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=3boa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3boa OCA], [~~http~~://pdbe.org/3boa PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3boa RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3boa PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3boa 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=3boa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3boa OCA], [https://pdbe.org/3boa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3boa RCSB], [https://www.ebi.ac.uk/pdbsum/3boa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3boa ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PDI_YEAST PDI_YEAST]] Protein disulfide isomerase of ER lumen required for formation of disulfide bonds in secretory and cell-surface proteins and which unscrambles non-native disulfide bonds. Forms a complex with MNL1 to process unfolded protein-bound Man8GlcNAc2 oligosaccharides to Man7GlcNAc2, promoting degradation in unfolded protein response.<ref>PMID:16002399</ref> <ref>PMID:19124653</ref> <ref>PMID:21700223</ref>	+	[[https://www.uniprot.org/uniprot/PDI_YEAST PDI_YEAST]] Protein disulfide isomerase of ER lumen required for formation of disulfide bonds in secretory and cell-surface proteins and which unscrambles non-native disulfide bonds. Forms a complex with MNL1 to process unfolded protein-bound Man8GlcNAc2 oligosaccharides to Man7GlcNAc2, promoting degradation in unfolded protein response.<ref>PMID:16002399</ref> <ref>PMID:19124653</ref> <ref>PMID:21700223</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Protein disulfide-isomerase]]		[[Category: Protein disulfide-isomerase]]
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]

OCA at 07:29, 31 October 2018

OCA — Wed, 31 Oct 2018 07:29:54 GMT

←Older revision		Revision as of 07:29, 31 October 2018
Line 15:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bo/3boa_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bo/3boa_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>

OCA at 02:36, 5 August 2016

OCA — Fri, 05 Aug 2016 02:36:37 GMT

←Older revision		Revision as of 02:36, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of yeast protein disulfide isomerase.==		==Crystal structure of yeast protein disulfide isomerase.==
	<StructureSection load='3boa' size='340' side='right' caption='[[3boa]], [[Resolution\|resolution]] 3.70Å' scene=''>		<StructureSection load='3boa' size='340' side='right' caption='[[3boa]], [[Resolution\|resolution]] 3.70Å' scene=''>
Line 6:		Line 7:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PDI1, MFP1, TRG1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PDI1, MFP1, TRG1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein_disulfide-isomerase Protein disulfide-isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.4.1 5.3.4.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein_disulfide-isomerase Protein disulfide-isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.4.1 5.3.4.1] </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=3boa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3boa OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3boa RCSB], [http://www.ebi.ac.uk/pdbsum/3boa 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=3boa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3boa OCA], [http://pdbe.org/3boa PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3boa RCSB], [http://www.ebi.ac.uk/pdbsum/3boa PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3boa ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	<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=3boa ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 3boa" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 15:10, 25 December 2014

OCA — Thu, 25 Dec 2014 15:10:13 GMT

←Older revision		Revision as of 15:10, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3boa]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BOA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BOA FirstGlance]. <br>		<table><tr><td colspan='2'>[[3boa]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BOA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BOA FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b5e\|2b5e]], [[1mek\|1mek]], [[2bjx\|2bjx]], [[2h8i\|2h8i]], [[1eej\|1eej]], [[1dsb\|1dsb]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b5e\|2b5e]], [[1mek\|1mek]], [[2bjx\|2bjx]], [[2h8i\|2h8i]], [[1eej\|1eej]], [[1dsb\|1dsb]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PDI1, MFP1, TRG1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PDI1, MFP1, TRG1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein_disulfide-isomerase Protein disulfide-isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.4.1 5.3.4.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein_disulfide-isomerase Protein disulfide-isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.4.1 5.3.4.1] </span></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=3boa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3boa OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3boa RCSB], [http://www.ebi.ac.uk/pdbsum/3boa 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=3boa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3boa OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3boa RCSB], [http://www.ebi.ac.uk/pdbsum/3boa PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PDI_YEAST PDI_YEAST]] Protein disulfide isomerase of ER lumen required for formation of disulfide bonds in secretory and cell-surface proteins and which unscrambles non-native disulfide bonds. Forms a complex with MNL1 to process unfolded protein-bound Man8GlcNAc2 oligosaccharides to Man7GlcNAc2, promoting degradation in unfolded protein response.<ref>PMID:16002399</ref> <ref>PMID:19124653</ref> <ref>PMID:21700223</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 34:
	[[Category: Protein disulfide-isomerase]]		[[Category: Protein disulfide-isomerase]]
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
-	[[Category: Lennarz, W J.]]	+	[[Category: Lennarz, W J]]
-	[[Category: Schindelin, H.]]	+	[[Category: Schindelin, H]]
-	[[Category: Tian, G.]]	+	[[Category: Tian, G]]
	[[Category: Disulfide bond formation]]		[[Category: Disulfide bond formation]]
	[[Category: Endoplasmic reticulum]]		[[Category: Endoplasmic reticulum]]

OCA at 20:45, 2 October 2014

OCA — Thu, 02 Oct 2014 20:45:52 GMT

←Older revision		Revision as of 20:45, 2 October 2014
Line 1:		Line 1:
-	[[~~Image:~~3boa.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of yeast protein disulfide isomerase.==
		+	<StructureSection load='3boa' size='340' side='right' caption='[[3boa]], [[Resolution\|resolution]] 3.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3boa]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BOA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BOA FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b5e\|2b5e]], [[1mek\|1mek]], [[2bjx\|2bjx]], [[2h8i\|2h8i]], [[1eej\|1eej]], [[1dsb\|1dsb]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PDI1, MFP1, TRG1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein_disulfide-isomerase Protein disulfide-isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.4.1 5.3.4.1] </span></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=3boa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3boa OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3boa RCSB], [http://www.ebi.ac.uk/pdbsum/3boa 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/bo/3boa_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 ==
		+	Protein-disulfide isomerase (PDI) catalyzes the formation of the correct pattern of disulfide bonds in secretory proteins. A low resolution crystal structure of yeast PDI described here reveals large scale conformational changes compared with the initially reported structure, indicating that PDI is a highly flexible molecule with its catalytic domains, a and a', representing two mobile arms connected to a more rigid core composed of the b and b' domains. Limited proteolysis revealed that the linker between the a domain and the core is more susceptible to degradation than that connecting the a' domain to the core. By restricting the two arms with inter-domain disulfide bonds, the molecular flexibility of PDI, especially that of its a domain, was demonstrated to be essential for the enzymatic activity in vitro and in vivo. The crystal structure also featured a PDI dimer, and a propensity to dimerize in solution and in the ER was confirmed by cross-linking experiments and the split green fluorescent protein system. Although sedimentation studies suggested that the self-association of PDI is weak, we hypothesize that PDI exists as an interconvertible mixture of monomers and dimers in the endoplasmic reticulum due to its high abundance in this compartment.

-	~~{{STRUCTURE_3boa\| PDB=3boa \| SCENE= }}~~	+	The catalytic activity of protein-disulfide isomerase requires a conformationally flexible molecule.,Tian G, Kober FX, Lewandrowski U, Sickmann A, Lennarz WJ, Schindelin H J Biol Chem. 2008 Nov 28;283(48):33630-40. Epub 2008 Sep 24. PMID:18815132<ref>PMID:18815132</ref>

-	~~===Crystal structure~~ of ~~yeast protein disulfide isomerase~~.~~===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18815132}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[3boa]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org~~/~~wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BOA OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:018815132<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Protein disulfide-isomerase]]		[[Category: Protein disulfide-isomerase]]
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]

OCA: Protected "3boa" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 17:45:42 GMT

Protected "3boa" [edit=sysop:move=sysop]

←Older revision

Revision as of 17:45, 7 January 2013

OCA at 17:45, 7 January 2013

OCA — Mon, 07 Jan 2013 17:45:39 GMT

←Older revision		Revision as of 17:45, 7 January 2013
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-	{{Seed}}
	[[Image:3boa.png\|left\|200px]]		[[Image:3boa.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3boa", 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_3boa\| PDB=3boa \| SCENE= }}		{{STRUCTURE_3boa\| PDB=3boa \| SCENE= }}

	===Crystal structure of yeast protein disulfide isomerase.===		===Crystal structure of yeast protein disulfide isomerase.===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18815132}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18815132 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18815132}}		{{ABSTRACT_PUBMED_18815132}}

	==About this Structure==		==About this Structure==
-	~~3BOA~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BOA OCA].	+	[[3boa]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BOA OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18815132~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018815132</ref><references group="xtra"/>
	[[Category: Protein disulfide-isomerase]]		[[Category: Protein disulfide-isomerase]]
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
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	[[Category: Redox-active center]]		[[Category: Redox-active center]]
	[[Category: Thioredoxin]]		[[Category: Thioredoxin]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 19:50:55 2009''

OCA at 17:50, 17 February 2009

OCA — Tue, 17 Feb 2009 17:50:57 GMT

←Older revision		Revision as of 17:50, 17 February 2009
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	==About this Structure==		==About this Structure==
-	3BOA is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BOA OCA].	+	3BOA is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BOA OCA].

	==Reference==		==Reference==
-	The Catalytic Activity of Protein-disulfide Isomerase Requires a Conformationally Flexible Molecule., Tian G, Kober FX, Lewandrowski U, Sickmann A, Lennarz WJ, Schindelin H, J Biol Chem. 2008 Nov 28;283(48):33630-40. Epub 2008 Sep 24. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18815132 18815132]~~	+	<ref group="xtra">PMID:18815132</ref><references group="xtra"/>
	[[Category: Protein disulfide-isomerase]]		[[Category: Protein disulfide-isomerase]]
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
-	[[Category: ~~Single protein~~]]	+	[[Category: Lennarz, W J.]]
-	[[Category: ~~Pdbx_ordinal=~~, ~~<PDBx~~:~~audit_author~~.]]	+	[[Category: Schindelin, H.]]
		+	[[Category: Tian, G.]]
	[[Category: Disulfide bond formation]]		[[Category: Disulfide bond formation]]
	[[Category: Endoplasmic reticulum]]		[[Category: Endoplasmic reticulum]]
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	[[Category: Thioredoxin]]		[[Category: Thioredoxin]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Dec 10 20~~:16:~~13 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 19:50:55 2009''

OCA at 06:16, 11 December 2008

OCA — Thu, 11 Dec 2008 06:16:21 GMT

←Older revision		Revision as of 06:16, 11 December 2008
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	==About this Structure==		==About this Structure==
-	3BOA is a ~~1 chain~~ structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BOA OCA].	+	3BOA is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BOA OCA].

	==Reference==		==Reference==
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	[[Category: Protein disulfide-isomerase]]		[[Category: Protein disulfide-isomerase]]
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
-	[[Category: ~~Lennarz, W J.~~]]	+	[[Category: Single protein]]
-	[[Category: ~~Schindelin~~, ~~H.]]~~	+	[[Category: Pdbx_ordinal=, <PDBx:audit_author.]]
-	~~[[Category~~: ~~Tian, G~~.]]	+
	[[Category: Disulfide bond formation]]		[[Category: Disulfide bond formation]]
	[[Category: Endoplasmic reticulum]]		[[Category: Endoplasmic reticulum]]
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	[[Category: Thioredoxin]]		[[Category: Thioredoxin]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec 10 15:24:27 2008''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec 10 20:16:13 2008''