3en0 - Revision history

OCA at 09:48, 21 February 2024

OCA — Wed, 21 Feb 2024 09:48:23 GMT

←Older revision		Revision as of 09:48, 21 February 2024
Line 3:		Line 3:
	<StructureSection load='3en0' size='340' side='right'caption='[[3en0]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3en0' size='340' side='right'caption='[[3en0]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3en0]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Aphanocapsa_sp~~.~~_(strain_n-1) Aphanocapsa~~ sp. ~~(strain n-1)~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EN0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EN0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3en0]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Synechocystis_sp._PCC_6803 Synechocystis sp. PCC 6803]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EN0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EN0 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.5Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max~~-~~height: 3em;'>[[1fy2\|1fy2]]~~, [[~~1fye~~\|~~1fye~~]]~~</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>cphB, slr2001 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~1148 Aphanocapsa sp. (strain N-1)])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/Cyanophycinase Cyanophycinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.15.6 3.4.15.6]~~ </~~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=3en0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3en0 OCA], [https://pdbe.org/3en0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3en0 RCSB], [https://www.ebi.ac.uk/pdbsum/3en0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3en0 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=3en0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3en0 OCA], [https://pdbe.org/3en0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3en0 RCSB], [https://www.ebi.ac.uk/pdbsum/3en0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3en0 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/CPHB_SYNY3 CPHB_SYNY3]] Exopeptidase that catalyzes the hydrolytic cleavage of multi-L-arginyl-poly-L-aspartic acid (cyanophycin; a water-insoluble reserve polymer) into aspartate-arginine dipeptides.	+	[https://www.uniprot.org/uniprot/CPHB_SYNY3 CPHB_SYNY3] Exopeptidase that catalyzes the hydrolytic cleavage of multi-L-arginyl-poly-L-aspartic acid (cyanophycin; a water-insoluble reserve polymer) into aspartate-arginine dipeptides.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=3en0 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=3en0 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Cyanophycin, or poly-L-Asp-multi-L-Arg, is a non-ribosomally synthesized peptidic polymer that is used for nitrogen storage by cyanobacteria and other select eubacteria. Upon synthesis, it self-associates to form insoluble granules, the degradation of which is uniquely catalyzed by a carboxy-terminal-specific protease, cyanophycinase. We have determined the structure of cyanophycinase from the freshwater cyanobacterium Synechocystis sp. PCC6803 at 1.5-A resolution, showing that the structure is dimeric, with individual protomers resembling aspartyl dipeptidase. Kinetic characterization of the enzyme demonstrates that the enzyme displays Michaelis-Menten kinetics with a k(cat) of 16.5 s(-1) and a k(cat)/K(M) of 7.5x10(-6) M(-1) s(-1). Site-directed mutagenesis experiments confirm that cyanophycinase is a serine protease and that Gln101, Asp172, Gln173, Arg178, Arg180 and Arg183, which form a conserved pocket adjacent to the catalytic Ser132, are functionally critical residues. Modeling indicates that cyanophycinase binds the beta-Asp-Arg dipeptide residue immediately N-terminal to the scissile bond in an extended conformation in this pocket, primarily recognizing this penultimate beta-Asp-Arg residue of the polymeric chain. Because binding and catalysis depend on substrate features unique to beta-linked aspartyl peptides, cyanophycinase is able to act within the cytosol without non-specific cleavage events disrupting essential cellular processes.
-
-	The structural basis of beta-peptide-specific cleavage by the serine protease cyanophycinase.,Law AM, Lai SW, Tavares J, Kimber MS J Mol Biol. 2009 Sep 18;392(2):393-404. Epub 2009 Jul 8. PMID:19591842<ref>PMID:19591842</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3en0" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Cyanophycinase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Kimber, M S]]~~	+	[[Category: Synechocystis sp. PCC 6803]]
-	~~[[Category: Lai, S W~~.S]]	+	[[Category: Kimber MS]]
-	[[Category: ~~Law, A M~~]]	+	[[Category: Lai SWS]]
-	[[Category: ~~Tavares, J~~]]	+	[[Category: Law AM]]
-	[[Category: ~~Beta peptide specific~~]]	+	[[Category: Tavares J]]
-	[[Category: ~~Hydrolase]]~~	+
-	~~[[Category: Protease]]~~	+
-	~~[[Category: Serine protease~~]]	+

OCA at 09:10, 23 February 2022

OCA — Wed, 23 Feb 2022 09:10:25 GMT

←Older revision		Revision as of 09:10, 23 February 2022
Line 1:		Line 1:

	==The Structure of Cyanophycinase==		==The Structure of Cyanophycinase==
-	<StructureSection load='3en0' size='340' side='right' caption='[[3en0]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='3en0' size='340' side='right'caption='[[3en0]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3en0]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Aphanocapsa_sp._(strain_n-1) Aphanocapsa sp. (strain n-1)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EN0 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3EN0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3en0]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Aphanocapsa_sp._(strain_n-1) Aphanocapsa sp. (strain n-1)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EN0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EN0 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1fy2\|1fy2]], [[1fye\|1fye]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1fy2\|1fy2]], [[1fye\|1fye]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cphB, slr2001 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1148 Aphanocapsa sp. (strain N-1)])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cphB, slr2001 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1148 Aphanocapsa sp. (strain N-1)])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Cyanophycinase Cyanophycinase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.15.6 3.4.15.6] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Cyanophycinase Cyanophycinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.15.6 3.4.15.6] </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=3en0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3en0 OCA], [~~http~~://pdbe.org/3en0 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3en0 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3en0 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3en0 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=3en0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3en0 OCA], [https://pdbe.org/3en0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3en0 RCSB], [https://www.ebi.ac.uk/pdbsum/3en0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3en0 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/CPHB_SYNY3 CPHB_SYNY3]] Exopeptidase that catalyzes the hydrolytic cleavage of multi-L-arginyl-poly-L-aspartic acid (cyanophycin; a water-insoluble reserve polymer) into aspartate-arginine dipeptides.	+	[[https://www.uniprot.org/uniprot/CPHB_SYNY3 CPHB_SYNY3]] Exopeptidase that catalyzes the hydrolytic cleavage of multi-L-arginyl-poly-L-aspartic acid (cyanophycin; a water-insoluble reserve polymer) into aspartate-arginine dipeptides.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Cyanophycinase]]		[[Category: Cyanophycinase]]
		+	[[Category: Large Structures]]
	[[Category: Kimber, M S]]		[[Category: Kimber, M S]]
	[[Category: Lai, S W.S]]		[[Category: Lai, S W.S]]

OCA at 21:34, 2 December 2018

OCA — Sun, 02 Dec 2018 21:34:48 GMT

←Older revision		Revision as of 21:34, 2 December 2018
Line 1:		Line 1:
		+
	==The Structure of Cyanophycinase==		==The Structure of Cyanophycinase==
	<StructureSection load='3en0' size='340' side='right' caption='[[3en0]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3en0' size='340' side='right' caption='[[3en0]], [[Resolution\|resolution]] 1.50Å' scene=''>
Line 7:		Line 8:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cphB, slr2001 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1148 Aphanocapsa sp. (strain N-1)])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cphB, slr2001 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1148 Aphanocapsa sp. (strain N-1)])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cyanophycinase Cyanophycinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.15.6 3.4.15.6] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cyanophycinase Cyanophycinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.15.6 3.4.15.6] </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=3en0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3en0 OCA], [http://pdbe.org/3en0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3en0 RCSB], [http://www.ebi.ac.uk/pdbsum/3en0 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=3en0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3en0 OCA], [http://pdbe.org/3en0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3en0 RCSB], [http://www.ebi.ac.uk/pdbsum/3en0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3en0 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 15:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/en/3en0_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/en/3en0_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 20:13, 9 February 2016

OCA — Tue, 09 Feb 2016 20:13:33 GMT

←Older revision		Revision as of 20:13, 9 February 2016
Line 2:		Line 2:
	<StructureSection load='3en0' size='340' side='right' caption='[[3en0]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3en0' size='340' side='right' caption='[[3en0]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3en0]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Synechocystis_sp~~. ~~Synechocystis~~ sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EN0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EN0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3en0]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Aphanocapsa_sp._(strain_n-1) Aphanocapsa sp. (strain n-1)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EN0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EN0 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1fy2\|1fy2]], [[1fye\|1fye]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1fy2\|1fy2]], [[1fye\|1fye]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cphB, slr2001 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~1143 Synechocystis~~ sp.])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cphB, slr2001 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1148 Aphanocapsa sp. (strain N-1)])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cyanophycinase Cyanophycinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.15.6 3.4.15.6] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cyanophycinase Cyanophycinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.15.6 3.4.15.6] </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=3en0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3en0 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3en0 RCSB], [http://www.ebi.ac.uk/pdbsum/3en0 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=3en0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3en0 OCA], [http://pdbe.org/3en0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3en0 RCSB], [http://www.ebi.ac.uk/pdbsum/3en0 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		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=3en0 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 29:		Line 29:
	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 3en0" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
Line 34:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Cyanophycinase]]		[[Category: Cyanophycinase]]
-	[[Category: Synechocystis sp]]
	[[Category: Kimber, M S]]		[[Category: Kimber, M S]]
	[[Category: Lai, S W.S]]		[[Category: Lai, S W.S]]

OCA at 09:16, 25 December 2014

OCA — Thu, 25 Dec 2014 09:16:00 GMT

←Older revision		Revision as of 09:16, 25 December 2014
Line 9:		Line 9:
	<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=3en0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3en0 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3en0 RCSB], [http://www.ebi.ac.uk/pdbsum/3en0 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=3en0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3en0 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3en0 RCSB], [http://www.ebi.ac.uk/pdbsum/3en0 PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CPHB_SYNY3 CPHB_SYNY3]] Exopeptidase that catalyzes the hydrolytic cleavage of multi-L-arginyl-poly-L-aspartic acid (cyanophycin; a water-insoluble reserve polymer) into aspartate-arginine dipeptides.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 13:32, 18 December 2014

OCA — Thu, 18 Dec 2014 13:32:48 GMT

←Older revision		Revision as of 13:32, 18 December 2014
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-	~~{{STRUCTURE_3en0~~\| ~~PDB~~=3en0 \| ~~SCENE~~= }}	+	==The Structure of Cyanophycinase==
-	===~~The Structure of~~ Cyanophycinase===	+	<StructureSection load='3en0' size='340' side='right' caption='[[3en0]], [[Resolution\|resolution]] 1.50Å' scene=''>
-	~~{{ABSTRACT_PUBMED_19591842}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3en0]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Synechocystis_sp. Synechocystis sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EN0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EN0 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1fy2\|1fy2]], [[1fye\|1fye]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cphB, slr2001 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1143 Synechocystis sp.])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cyanophycinase Cyanophycinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.15.6 3.4.15.6] </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=3en0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3en0 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3en0 RCSB], [http://www.ebi.ac.uk/pdbsum/3en0 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/en/3en0_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 ==
		+	Cyanophycin, or poly-L-Asp-multi-L-Arg, is a non-ribosomally synthesized peptidic polymer that is used for nitrogen storage by cyanobacteria and other select eubacteria. Upon synthesis, it self-associates to form insoluble granules, the degradation of which is uniquely catalyzed by a carboxy-terminal-specific protease, cyanophycinase. We have determined the structure of cyanophycinase from the freshwater cyanobacterium Synechocystis sp. PCC6803 at 1.5-A resolution, showing that the structure is dimeric, with individual protomers resembling aspartyl dipeptidase. Kinetic characterization of the enzyme demonstrates that the enzyme displays Michaelis-Menten kinetics with a k(cat) of 16.5 s(-1) and a k(cat)/K(M) of 7.5x10(-6) M(-1) s(-1). Site-directed mutagenesis experiments confirm that cyanophycinase is a serine protease and that Gln101, Asp172, Gln173, Arg178, Arg180 and Arg183, which form a conserved pocket adjacent to the catalytic Ser132, are functionally critical residues. Modeling indicates that cyanophycinase binds the beta-Asp-Arg dipeptide residue immediately N-terminal to the scissile bond in an extended conformation in this pocket, primarily recognizing this penultimate beta-Asp-Arg residue of the polymeric chain. Because binding and catalysis depend on substrate features unique to beta-linked aspartyl peptides, cyanophycinase is able to act within the cytosol without non-specific cleavage events disrupting essential cellular processes.

-	~~==Function==~~	+	The structural basis of beta-peptide-specific cleavage by the serine protease cyanophycinase.,Law AM, Lai SW, Tavares J, Kimber MS J Mol Biol. 2009 Sep 18;392(2):393-404. Epub 2009 Jul 8. PMID:19591842<ref>PMID:19591842</ref>
-	~~[[http://www.uniprot.org/uniprot/CPHB_SYNY3 CPHB_SYNY3]] Exopeptidase that catalyzes the hydrolytic cleavage~~ of ~~multi~~-L-~~arginyl-poly-L-aspartic acid~~ (~~cyanophycin; a water-insoluble reserve polymer~~) ~~into aspartate~~-~~arginine dipeptides~~.	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[3en0]] is~~ a ~~3 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Synechocystis_sp~~. ~~Synechocystis sp.]. Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3EN0 OCA].~~	+	</div>
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:019591842</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Cyanophycinase]]		[[Category: Cyanophycinase]]
-	[[Category: Synechocystis sp.]]	+	[[Category: Synechocystis sp]]
-	[[Category: Kimber, M S.]]	+	[[Category: Kimber, M S]]
-	[[Category: Lai, S W.S.]]	+	[[Category: Lai, S W.S]]
-	[[Category: Law, A M.]]	+	[[Category: Law, A M]]
-	[[Category: Tavares, J.]]	+	[[Category: Tavares, J]]
	[[Category: Beta peptide specific]]		[[Category: Beta peptide specific]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Protease]]		[[Category: Protease]]
	[[Category: Serine protease]]		[[Category: Serine protease]]

OCA at 09:29, 27 March 2013

OCA — Wed, 27 Mar 2013 09:29:25 GMT

←Older revision		Revision as of 09:29, 27 March 2013
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-	[[Image:3en0.png\|left\|200px]]
-
-	<!--
-	The line below this paragraph, containing "STRUCTURE_3en0", 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_3en0\| PDB=3en0 \| SCENE= }}		{{STRUCTURE_3en0\| PDB=3en0 \| SCENE= }}
-
	===The Structure of Cyanophycinase===		===The Structure of Cyanophycinase===
		+	{{ABSTRACT_PUBMED_19591842}}

-		+	==Function==
-	~~<!--~~	+	[[http://www.uniprot.org/uniprot/CPHB_SYNY3 CPHB_SYNY3]] Exopeptidase that catalyzes the hydrolytic cleavage of multi-L-arginyl-poly-L-aspartic acid (cyanophycin; a water-insoluble reserve polymer) into aspartate-arginine dipeptides.
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_19591842}}, adds the Publication Abstract to the page~~	+
-	~~(as it appears on PubMed at~~ http://www.~~pubmed~~.~~gov), where 19591842 is~~ the ~~PubMed ID number.~~	+
-	-->	+
-	~~{{ABSTRACT_PUBMED_19591842}}~~	+

	==About this Structure==		==About this Structure==
-	[[3en0]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Synechocystis_sp.~~_pcc_6803~~ Synechocystis sp. ~~pcc 6803~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EN0 OCA].	+	[[3en0]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Synechocystis_sp. Synechocystis sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EN0 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:019591842</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019591842</ref><references group="xtra"/><references/>
	[[Category: Cyanophycinase]]		[[Category: Cyanophycinase]]
-	[[Category: Synechocystis sp. ~~pcc 6803~~]]	+	[[Category: Synechocystis sp.]]
	[[Category: Kimber, M S.]]		[[Category: Kimber, M S.]]
	[[Category: Lai, S W.S.]]		[[Category: Lai, S W.S.]]

OCA: Protected "3en0" [edit=sysop:move=sysop]

OCA — Thu, 26 May 2011 11:18:42 GMT

Protected "3en0" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:18, 26 May 2011

OCA at 11:18, 26 May 2011

OCA — Thu, 26 May 2011 11:18:39 GMT

←Older revision		Revision as of 11:18, 26 May 2011
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-	{{Seed}}
	[[Image:3en0.png\|left\|200px]]		[[Image:3en0.png\|left\|200px]]

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	==About this Structure==		==About this Structure==
-	~~3EN0~~ is a 3 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Synechocystis_sp._pcc_6803 Synechocystis sp. pcc 6803]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EN0 OCA].	+	[[3en0]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Synechocystis_sp._pcc_6803 Synechocystis sp. pcc 6803]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EN0 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19591842~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019591842</ref><references group="xtra"/>
	[[Category: Cyanophycinase]]		[[Category: Cyanophycinase]]
	[[Category: Synechocystis sp. pcc 6803]]		[[Category: Synechocystis sp. pcc 6803]]
Line 34:		Line 33:
	[[Category: Protease]]		[[Category: Protease]]
	[[Category: Serine protease]]		[[Category: Serine protease]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 16 08:24:08 2009''

OCA at 05:24, 16 September 2009

OCA — Wed, 16 Sep 2009 05:24:08 GMT

←Older revision		Revision as of 05:24, 16 September 2009
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3en0.png\|left\|200px]]

-	The ~~entry 3en0~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3en0", 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_3en0\| PDB=3en0 \| SCENE= }}

-	~~Authors: Kimber, M.S., Law, A.M., Lai, S.W.S., Tavares, J.~~	+	===The Structure of Cyanophycinase===

-	Description: The Structure of Cyanophycinase

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Jul 1~~ 08:53:10 2009''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19591842}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19591842 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19591842}}
		+
		+	==About this Structure==
		+	3EN0 is a 3 chains structure of sequences from [http://en.wikipedia.org/wiki/Synechocystis_sp._pcc_6803 Synechocystis sp. pcc 6803]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EN0 OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:19591842</ref><references group="xtra"/>
		+	[[Category: Cyanophycinase]]
		+	[[Category: Synechocystis sp. pcc 6803]]
		+	[[Category: Kimber, M S.]]
		+	[[Category: Lai, S W.S.]]
		+	[[Category: Law, A M.]]
		+	[[Category: Tavares, J.]]
		+	[[Category: Beta peptide specific]]
		+	[[Category: Hydrolase]]
		+	[[Category: Protease]]
		+	[[Category: Serine protease]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 16 08:24:08 2009''