5i3z - Revision history

OCA at 08:22, 23 August 2023

OCA — Wed, 23 Aug 2023 08:22:27 GMT

←Older revision		Revision as of 08:22, 23 August 2023
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	<StructureSection load='5i3z' size='340' side='right'caption='[[5i3z]], [[Resolution\|resolution]] 2.05Å' scene=''>		<StructureSection load='5i3z' size='340' side='right'caption='[[5i3z]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5i3z]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"erwinia_carotovora_var._chrysanthemi"_(burkholder_et_al._1953)_dye_1969 "erwinia carotovora var.~~ chrysanthemi~~" (burkholder et al. 1953) dye 1969~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I3Z OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5I3Z FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5i3z]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Dickeya_chrysanthemi Dickeya chrysanthemi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I3Z OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5I3Z FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=ASP:ASPARTIC+ACID'>ASP</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]] 2.05Å</td></tr>
-	~~<tr~~ id~~='related'><td class~~="~~sblockLbl~~">~~<b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5i4b\|5i4b]]~~, [[~~5i48~~\|~~5i48~~]]</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ASP:ASPARTIC+ACID'>ASP</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>ansB, asn ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~556~~ "~~Erwinia carotovora var. chrysanthemi~~" ~~(Burkholder et al. 1953) Dye 1969])</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=5i3z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i3z OCA], [https://pdbe.org/5i3z PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5i3z RCSB], [https://www.ebi.ac.uk/pdbsum/5i3z PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5i3z ProSAT]</span></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[http://en.wikipedia.org/wiki/Asparaginase Asparaginase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.1 3.5.1.1]~~ </~~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=5i3z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i3z OCA], [~~http~~://pdbe.org/5i3z PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5i3z RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5i3z PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5i3z ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/ASPG_DICCH ASPG_DICCH]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Current FDA-approved l-asparaginases also possess significant l-glutaminase activity, which correlates with many of the toxic side effects of these drugs. Therefore, l-asparaginases with reduced l-glutaminase activity are predicted to be safer. We exploited our recently described structures of the Erwinia chrysanthemi l-asparaginase (ErA) to inform the design of mutants with diminished ability to hydrolyze l-glutamine. Structural analysis of these variants provides insight into the molecular basis for the increased l-asparagine specificity. A primary role is attributed to the E63Q mutation that acts to hinder the correct positioning of l-glutamine but not l-asparagine. The substitution of Ser-254 with either an asparagine or a glutamine increases the l-asparagine specificity but only when combined with the E63Q mutation. The A31I mutation reduces the substrate Km value; this is a key property to allow the required therapeutic l-asparagine depletion. Significantly, an ultra-low l-glutaminase ErA variant maintained its cell killing ability. By diminishing the l-glutaminase activity of these highly active l-asparaginases, our engineered ErA variants hold promise as l-asparaginases with fewer side effects.
		+
		+	Design and Characterization of Erwinia Chrysanthemi l-Asparaginase Variants with Diminished l-Glutaminase Activity.,Nguyen HA, Su Y, Lavie A J Biol Chem. 2016 Aug 19;291(34):17664-76. doi: 10.1074/jbc.M116.728485. Epub , 2016 Jun 27. PMID:27354283<ref>PMID:27354283</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5i3z" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Asparaginase 3D structures\|Asparaginase 3D structures]]		*[[Asparaginase 3D structures\|Asparaginase 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Asparaginase~~]]	+	[[Category: Dickeya chrysanthemi]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Lavie, A]]	+	[[Category: Lavie A]]
-	[[Category: Nguyen~~, H A]]~~	+	[[Category: Nguyen HA]]
-	~~[[Category: Aspartic acid]]~~	+
-	~~[[Category: E63q mutation]]~~	+
-	~~[[Category: Erwinia chrysanthemum]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: L-asparaginase~~]]	+

OCA at 16:15, 11 December 2019

OCA — Wed, 11 Dec 2019 16:15:36 GMT

←Older revision		Revision as of 16:15, 11 December 2019
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	==Erwinia chrysanthemi L-asparaginase E63Q mutation + Aspartic acid==		==Erwinia chrysanthemi L-asparaginase E63Q mutation + Aspartic acid==
-	<StructureSection load='5i3z' size='340' side='right' caption='[[5i3z]], [[Resolution\|resolution]] 2.05Å' scene=''>	+	<StructureSection load='5i3z' size='340' side='right'caption='[[5i3z]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5i3z]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"erwinia_carotovora_var._chrysanthemi"_(burkholder_et_al._1953)_dye_1969 "erwinia carotovora var. chrysanthemi" (burkholder et al. 1953) dye 1969]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I3Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5I3Z FirstGlance]. <br>		<table><tr><td colspan='2'>[[5i3z]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"erwinia_carotovora_var._chrysanthemi"_(burkholder_et_al._1953)_dye_1969 "erwinia carotovora var. chrysanthemi" (burkholder et al. 1953) dye 1969]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I3Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5I3Z FirstGlance]. <br>
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	<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=5i3z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i3z OCA], [http://pdbe.org/5i3z PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5i3z RCSB], [http://www.ebi.ac.uk/pdbsum/5i3z PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5i3z 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=5i3z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i3z OCA], [http://pdbe.org/5i3z PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5i3z RCSB], [http://www.ebi.ac.uk/pdbsum/5i3z PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5i3z ProSAT]</span></td></tr>
	</table>		</table>
		+
		+	==See Also==
		+	*[[Asparaginase 3D structures\|Asparaginase 3D structures]]
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Asparaginase]]		[[Category: Asparaginase]]
		+	[[Category: Large Structures]]
	[[Category: Lavie, A]]		[[Category: Lavie, A]]
	[[Category: Nguyen, H A]]		[[Category: Nguyen, H A]]

OCA at 12:49, 6 November 2017

OCA — Mon, 06 Nov 2017 12:49:46 GMT

←Older revision		Revision as of 12:49, 6 November 2017
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	<StructureSection load='5i3z' size='340' side='right' caption='[[5i3z]], [[Resolution\|resolution]] 2.05Å' scene=''>		<StructureSection load='5i3z' size='340' side='right' caption='[[5i3z]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5i3z]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I3Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5I3Z FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5i3z]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"erwinia_carotovora_var._chrysanthemi"_(burkholder_et_al._1953)_dye_1969 "erwinia carotovora var. chrysanthemi" (burkholder et al. 1953) dye 1969]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I3Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5I3Z FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ASP:ASPARTIC+ACID'>ASP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ASP:ASPARTIC+ACID'>ASP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5i4b\|5i4b]], [[5i48\|5i48]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5i4b\|5i4b]], [[5i48\|5i48]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ansB, asn ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=556 "Erwinia carotovora var. chrysanthemi" (Burkholder et al. 1953) Dye 1969])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Asparaginase Asparaginase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.1 3.5.1.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Asparaginase Asparaginase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.1 3.5.1.1] </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=5i3z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i3z OCA], [http://pdbe.org/5i3z PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5i3z RCSB], [http://www.ebi.ac.uk/pdbsum/5i3z PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5i3z 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=5i3z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i3z OCA], [http://pdbe.org/5i3z PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5i3z RCSB], [http://www.ebi.ac.uk/pdbsum/5i3z PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5i3z ProSAT]</span></td></tr>

OCA at 18:01, 13 July 2016

OCA — Wed, 13 Jul 2016 18:01:09 GMT

←Older revision		Revision as of 18:01, 13 July 2016
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-	'''Unreleased structure'''

-	~~The entry~~ 5i3z is ~~ON HOLD until Paper Publication~~	+	==Erwinia chrysanthemi L-asparaginase E63Q mutation + Aspartic acid==
-		+	<StructureSection load='5i3z' size='340' side='right' caption='[[5i3z]], [[Resolution\|resolution]] 2.05Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5i3z]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I3Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5I3Z FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ASP:ASPARTIC+ACID'>ASP</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5i4b\|5i4b]], [[5i48\|5i48]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Asparaginase Asparaginase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.1 3.5.1.1] </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=5i3z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i3z OCA], [http://pdbe.org/5i3z PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5i3z RCSB], [http://www.ebi.ac.uk/pdbsum/5i3z PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5i3z ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Asparaginase]]
		+	[[Category: Lavie, A]]
		+	[[Category: Nguyen, H A]]
		+	[[Category: Aspartic acid]]
		+	[[Category: E63q mutation]]
		+	[[Category: Erwinia chrysanthemum]]
		+	[[Category: Hydrolase]]
		+	[[Category: L-asparaginase]]

OCA at 14:08, 15 May 2016

OCA — Sun, 15 May 2016 14:08:31 GMT

←Older revision		Revision as of 14:08, 15 May 2016
Line 3:		Line 3:
	The entry 5i3z is ON HOLD until Paper Publication		The entry 5i3z is ON HOLD until Paper Publication

-	Authors: ~~Nguyen, H.A., Lavie, A.~~	+	Authors:

	Description:		Description:
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Nguyen, H.A]]
-	[[Category: Lavie, A]]

OCA at 13:20, 2 March 2016

OCA — Wed, 02 Mar 2016 13:20:59 GMT

←Older revision		Revision as of 13:20, 2 March 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5i3z is ON HOLD	+	The entry 5i3z is ON HOLD until Paper Publication

	Authors: Nguyen, H.A., Lavie, A.		Authors: Nguyen, H.A., Lavie, A.

OCA: Protected "5i3z" [edit=sysop:move=sysop]

OCA — Sun, 21 Feb 2016 01:34:14 GMT

Protected "5i3z" [edit=sysop:move=sysop]

←Older revision

Revision as of 01:34, 21 February 2016

OCA: New page: '''Unreleased structure''' The entry 5i3z is ON HOLD Authors: Nguyen, H.A., Lavie, A. Description: Category: Unreleased Structures Category: Nguyen, H.A Category: Lavie, A

OCA — Sun, 21 Feb 2016 01:34:12 GMT

New page: '''Unreleased structure''' The entry 5i3z is ON HOLD Authors: Nguyen, H.A., Lavie, A. Description: Category: Unreleased Structures Category: Nguyen, H.A Category: Lavie, A

New page

'''Unreleased structure'''

The entry 5i3z is ON HOLD

Authors: Nguyen, H.A., Lavie, A.

Description:
[[Category: Unreleased Structures]]
[[Category: Nguyen, H.A]]
[[Category: Lavie, A]]