1dvi - Revision history

OCA at 06:59, 7 February 2024

2024-02-07T06:59:44Z

←Older revision		Revision as of 06:59, 7 February 2024
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	<StructureSection load='1dvi' size='340' side='right'caption='[[1dvi]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1dvi' size='340' side='right'caption='[[1dvi]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1dvi]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DVI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1dvi]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DVI FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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]] 2.3Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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=1dvi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvi OCA], [https://pdbe.org/1dvi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dvi RCSB], [https://www.ebi.ac.uk/pdbsum/1dvi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dvi 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=1dvi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvi OCA], [https://pdbe.org/1dvi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dvi RCSB], [https://www.ebi.ac.uk/pdbsum/1dvi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dvi ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/CPNS1_RAT CPNS1_RAT]] Regulatory subunit of the calcium-regulated non-lysosomal thiol-protease which catalyzes limited proteolysis of substrates involved in cytoskeletal remodeling and signal transduction.	+	[https://www.uniprot.org/uniprot/CPNS1_RAT CPNS1_RAT] Regulatory subunit of the calcium-regulated non-lysosomal thiol-protease which catalyzes limited proteolysis of substrates involved in cytoskeletal remodeling and signal transduction.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 19:		Line 20:
	</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=1dvi 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=1dvi ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The crystal structure of a Ca(2+)-binding domain (dVI) of rat m-calpain has been determined at 2.3 A resolution, both with and without bound Ca2+. The structures reveal a unique fold incorporating five EF-hand motifs per monomer, three of which bind calcium at physiological calcium concentrations, with one showing a novel EF-hand coordination pattern. This investigation gives us a first view of the calcium-induced conformational changes, and consequently an insight into the mechanism of calcium induced activation in calpain. The crystal structures reveal a dVI homodimer which provides a preliminary model for the subunit dimerization in calpain.
-
-	Structure of a calpain Ca(2+)-binding domain reveals a novel EF-hand and Ca(2+)-induced conformational changes.,Blanchard H, Grochulski P, Li Y, Arthur JS, Davies PL, Elce JS, Cygler M Nat Struct Biol. 1997 Jul;4(7):532-8. PMID:9228945<ref>PMID:9228945</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1dvi" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Calpain 3D structures\|Calpain 3D structures]]		*[[Calpain 3D structures\|Calpain 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Blanchard, H~~]]	+	[[Category: Rattus norvegicus]]
-	[[Category: ~~Cygler, M~~]]	+	[[Category: Blanchard H]]
-	[[Category: ~~Grochulski, P~~]]	+	[[Category: Cygler M]]
-	[[Category: ~~Calcium-dependent protease]]~~	+	[[Category: Grochulski P]]
-	~~[[Category: Small subunit~~]]	+

OCA at 18:36, 10 March 2021

2021-03-10T18:36:26Z

←Older revision		Revision as of 18:36, 10 March 2021
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	<StructureSection load='1dvi' size='340' side='right'caption='[[1dvi]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1dvi' size='340' side='right'caption='[[1dvi]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1dvi]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVI OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1DVI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1dvi]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DVI FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></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=1dvi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvi OCA], [~~http~~://pdbe.org/1dvi PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1dvi RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1dvi PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1dvi 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=1dvi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvi OCA], [https://pdbe.org/1dvi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dvi RCSB], [https://www.ebi.ac.uk/pdbsum/1dvi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dvi ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/CPNS1_RAT CPNS1_RAT]] Regulatory subunit of the calcium-regulated non-lysosomal thiol-protease which catalyzes limited proteolysis of substrates involved in cytoskeletal remodeling and signal transduction.	+	[[https://www.uniprot.org/uniprot/CPNS1_RAT CPNS1_RAT]] Regulatory subunit of the calcium-regulated non-lysosomal thiol-protease which catalyzes limited proteolysis of substrates involved in cytoskeletal remodeling and signal transduction.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 23:36, 5 June 2019

2019-06-05T23:36:48Z

←Older revision		Revision as of 23:36, 5 June 2019
Line 1:		Line 1:

	==CALPAIN DOMAIN VI WITH CALCIUM BOUND==		==CALPAIN DOMAIN VI WITH CALCIUM BOUND==
-	<StructureSection load='1dvi' size='340' side='right' caption='[[1dvi]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='1dvi' size='340' side='right'caption='[[1dvi]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1dvi]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVI FirstGlance]. <br>		<table><tr><td colspan='2'>[[1dvi]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVI FirstGlance]. <br>
Line 13:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dv/1dvi_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dv/1dvi_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 30:		Line 30:

	==See Also==		==See Also==
-	*[[Calpain\|Calpain]]	+	*[[Calpain 3D structures\|Calpain 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Blanchard, H]]		[[Category: Blanchard, H]]
	[[Category: Cygler, M]]		[[Category: Cygler, M]]

OCA at 04:09, 30 August 2017

2017-08-30T04:09:14Z

←Older revision		Revision as of 04:09, 30 August 2017
Line 1:		Line 1:
		+
	==CALPAIN DOMAIN VI WITH CALCIUM BOUND==		==CALPAIN DOMAIN VI WITH CALCIUM BOUND==
	<StructureSection load='1dvi' size='340' side='right' caption='[[1dvi]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1dvi' size='340' side='right' caption='[[1dvi]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1dvi]] is a 2 chain structure ~~with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1dvi]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVI FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAPN4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</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=1dvi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvi OCA], [http://pdbe.org/1dvi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1dvi RCSB], [http://www.ebi.ac.uk/pdbsum/1dvi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1dvi 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=1dvi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvi OCA], [http://pdbe.org/1dvi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1dvi RCSB], [http://www.ebi.ac.uk/pdbsum/1dvi PDBsum]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
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=1dvi 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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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Buffalo rat]]
	[[Category: Blanchard, H]]		[[Category: Blanchard, H]]
	[[Category: Cygler, M]]		[[Category: Cygler, M]]

OCA at 10:32, 11 September 2015

2015-09-11T10:32:42Z

←Older revision		Revision as of 10:32, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1dvi' size='340' side='right' caption='[[1dvi]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1dvi' size='340' side='right' caption='[[1dvi]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1dvi]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Rattus_norvegicus Rattus norvegicus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1dvi]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVI FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAPN4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 ~~Rattus norvegicus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAPN4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</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=1dvi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dvi RCSB], [http://www.ebi.ac.uk/pdbsum/1dvi 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=1dvi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvi OCA], [http://pdbe.org/1dvi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1dvi RCSB], [http://www.ebi.ac.uk/pdbsum/1dvi 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 1dvi" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Calpain\|Calpain]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Rattus norvegicus~~]]	+	[[Category: Buffalo rat]]
	[[Category: Blanchard, H]]		[[Category: Blanchard, H]]
	[[Category: Cygler, M]]		[[Category: Cygler, M]]

OCA at 15:15, 25 December 2014

2014-12-25T15:15:26Z

←Older revision		Revision as of 15:15, 25 December 2014
Line 7:		Line 7:
	<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=1dvi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dvi RCSB], [http://www.ebi.ac.uk/pdbsum/1dvi 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=1dvi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dvi RCSB], [http://www.ebi.ac.uk/pdbsum/1dvi PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CPNS1_RAT CPNS1_RAT]] Regulatory subunit of the calcium-regulated non-lysosomal thiol-protease which catalyzes limited proteolysis of substrates involved in cytoskeletal remodeling and signal transduction.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 18:24, 22 December 2014

2014-12-22T18:24:34Z

←Older revision		Revision as of 18:24, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1dvi]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVI FirstGlance]. <br>		<table><tr><td colspan='2'>[[1dvi]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVI FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAPN4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAPN4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</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=1dvi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dvi RCSB], [http://www.ebi.ac.uk/pdbsum/1dvi 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=1dvi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dvi RCSB], [http://www.ebi.ac.uk/pdbsum/1dvi PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 25:		Line 25:
	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>
-
-	==See Also==
-	*[[Calpain\|Calpain]]
	== References ==		== References ==
	<references/>		<references/>
Line 33:		Line 30:
	</StructureSection>		</StructureSection>
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
-	[[Category: Blanchard, H.]]	+	[[Category: Blanchard, H]]
-	[[Category: Cygler, M.]]	+	[[Category: Cygler, M]]
-	[[Category: Grochulski, P.]]	+	[[Category: Grochulski, P]]
	[[Category: Calcium-dependent protease]]		[[Category: Calcium-dependent protease]]
	[[Category: Small subunit]]		[[Category: Small subunit]]

OCA at 10:46, 10 September 2014

2014-09-10T10:46:29Z

←Older revision		Revision as of 10:46, 10 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1dvi.~~png~~\|~~left~~\|200px]]	+	==CALPAIN DOMAIN VI WITH CALCIUM BOUND==
		+	<StructureSection load='1dvi' size='340' side='right' caption='[[1dvi]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1dvi]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVI FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAPN4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</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=1dvi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dvi RCSB], [http://www.ebi.ac.uk/pdbsum/1dvi 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/dv/1dvi_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 ==
		+	The crystal structure of a Ca(2+)-binding domain (dVI) of rat m-calpain has been determined at 2.3 A resolution, both with and without bound Ca2+. The structures reveal a unique fold incorporating five EF-hand motifs per monomer, three of which bind calcium at physiological calcium concentrations, with one showing a novel EF-hand coordination pattern. This investigation gives us a first view of the calcium-induced conformational changes, and consequently an insight into the mechanism of calcium induced activation in calpain. The crystal structures reveal a dVI homodimer which provides a preliminary model for the subunit dimerization in calpain.

-	~~{{STRUCTURE_1dvi\| PDB=1dvi \| SCENE= }}~~	+	Structure of a calpain Ca(2+)-binding domain reveals a novel EF-hand and Ca(2+)-induced conformational changes.,Blanchard H, Grochulski P, Li Y, Arthur JS, Davies PL, Elce JS, Cygler M Nat Struct Biol. 1997 Jul;4(7):532-8. PMID:9228945<ref>PMID:9228945</ref>

-	~~===CALPAIN DOMAIN VI WITH CALCIUM BOUND===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_9228945}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1dvi]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Rattus_norvegicus Rattus norvegicus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1DVI OCA].~~	+

	==See Also==		==See Also==
	*[[Calpain\|Calpain]]		*[[Calpain\|Calpain]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:009228945<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
	[[Category: Blanchard, H.]]		[[Category: Blanchard, H.]]

OCA at 18:12, 20 October 2012

2012-10-20T18:12:52Z

←Older revision		Revision as of 18:12, 20 October 2012
Line 1:		Line 1:
	[[Image:1dvi.png\|left\|200px]]		[[Image:1dvi.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1dvi", 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.
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	{{STRUCTURE_1dvi\| PDB=1dvi \| SCENE= }}		{{STRUCTURE_1dvi\| PDB=1dvi \| SCENE= }}

	===CALPAIN DOMAIN VI WITH CALCIUM BOUND===		===CALPAIN DOMAIN VI WITH CALCIUM BOUND===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_9228945}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 9228945 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_9228945}}		{{ABSTRACT_PUBMED_9228945}}

	==About this Structure==		==About this Structure==
	[[1dvi]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVI OCA].		[[1dvi]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVI OCA].
		+
		+	==See Also==
		+	*[[Calpain\|Calpain]]

	==Reference==		==Reference==

OCA: Protected "1dvi" [edit=sysop:move=sysop]

2012-05-02T18:36:53Z

Protected "1dvi" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:36, 2 May 2012