5l86 - Revision history

OCA at 16:10, 4 October 2023

2023-10-04T16:10:53Z

←Older revision		Revision as of 16:10, 4 October 2023
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	<StructureSection load='5l86' size='340' side='right'caption='[[5l86]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='5l86' size='340' side='right'caption='[[5l86]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5l86]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Glycine_hispida~~ Glycine ~~hispida~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5L86 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5L86 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5l86]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Glycine_max Glycine max]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5L86 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5L86 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>~~, ~~<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]] 1.9Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~MHS~~:~~N1-METHYLATED~~+~~HISTIDINE~~'>~~MHS~~</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=MHS:N1-METHYLATED+HISTIDINE'>MHS</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></~~td><td class="sblockDat"~~>~~apx1~~, ~~GLYMA_U021900 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3847 Glycine hispida])~~<~~/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=5l86 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5l86 OCA], [https://pdbe.org/5l86 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5l86 RCSB], [https://www.ebi.ac.uk/pdbsum/5l86 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5l86 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/L-ascorbate_peroxidase L-ascorbate peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.11 1.11.1.11]~~ </~~span~~></td></tr>	+
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5l86 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5l86 OCA], [~~http~~://pdbe.org/5l86 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5l86 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5l86 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5l86 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q43758_SOYBN Q43758_SOYBN]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Glycine ~~hispida]]~~	+	[[Category: Glycine max]]
-	~~[[Category: L-ascorbate peroxidase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Hayashi, T]]	+	[[Category: Hayashi T]]
-	[[Category: Hilvert, D]]	+	[[Category: Hilvert D]]
-	[[Category: Mittl, P]]	+	[[Category: Mittl P]]
-	~~[[Category: Apx2]]~~	+
-	~~[[Category: Heme]]~~	+
-	~~[[Category: Methyl histidine]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Peroxidase]]~~	+
-	~~[[Category: Protein engineering~~]]	+

OCA at 07:00, 5 August 2020

2020-08-05T07:00:48Z

←Older revision		Revision as of 07:00, 5 August 2020
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	==engineered ascorbate peroxidise==		==engineered ascorbate peroxidise==
-	<StructureSection load='5l86' size='340' side='right' caption='[[5l86]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='5l86' size='340' side='right'caption='[[5l86]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5l86]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5L86 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5L86 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5l86]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Glycine_hispida Glycine hispida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5L86 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5L86 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <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=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MHS:N1-METHYLATED+HISTIDINE'>MHS</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MHS:N1-METHYLATED+HISTIDINE'>MHS</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">apx1, GLYMA_U021900 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3847 Glycine hispida])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-ascorbate_peroxidase L-ascorbate peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.11 1.11.1.11] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-ascorbate_peroxidase L-ascorbate peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.11 1.11.1.11] </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=5l86 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5l86 OCA], [http://pdbe.org/5l86 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5l86 RCSB], [http://www.ebi.ac.uk/pdbsum/5l86 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5l86 ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5l86 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5l86 OCA], [http://pdbe.org/5l86 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5l86 RCSB], [http://www.ebi.ac.uk/pdbsum/5l86 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5l86 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	==See Also==		==See Also==
-	*[[Ascorbate peroxidase\|Ascorbate peroxidase]]	+	*[[Ascorbate peroxidase 3D structures\|Ascorbate peroxidase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Glycine hispida]]
	[[Category: L-ascorbate peroxidase]]		[[Category: L-ascorbate peroxidase]]
		+	[[Category: Large Structures]]
	[[Category: Hayashi, T]]		[[Category: Hayashi, T]]
	[[Category: Hilvert, D]]		[[Category: Hilvert, D]]

OCA at 09:16, 10 March 2017

2017-03-10T09:16:12Z

←Older revision		Revision as of 09:16, 10 March 2017
Line 18:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 5l86" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5l86" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Ascorbate peroxidase\|Ascorbate peroxidase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:56, 9 March 2017

2017-03-09T07:56:40Z

←Older revision		Revision as of 07:56, 9 March 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5l86 is ~~ON HOLD until Paper~~ Publication	+	==engineered ascorbate peroxidise==
		+	<StructureSection load='5l86' size='340' side='right' caption='[[5l86]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5l86]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5L86 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5L86 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MHS:N1-METHYLATED+HISTIDINE'>MHS</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-ascorbate_peroxidase L-ascorbate peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.11 1.11.1.11] </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=5l86 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5l86 OCA], [http://pdbe.org/5l86 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5l86 RCSB], [http://www.ebi.ac.uk/pdbsum/5l86 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5l86 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Enzymes rely on complex interactions between precisely positioned active site residues as a mechanism to compensate for the limited functionality contained within the genetic code. Heme enzymes provide a striking example of this complexity, whereby the electronic properties of reactive ferryl intermediates are finely tuned through hydrogen bonding interactions between proximal ligands and neighboring amino acids. Here, we show that introduction of a chemically programmed proximal Ndelta-methyl histidine (NMH) ligand into an engineered ascorbate peroxidase (APX2) overcomes the reliance on the conserved Asp-His hydrogen bonding interaction, leading to a catalytically modified enzyme (APX2 NMH), which is able to achieve a significantly higher number of turnovers compared with APX2 without compromising catalytic efficiency. Structural, spectroscopic and kinetic characterization of APX2 NMH and several active site variants provides valuable insights into the role of the Asp-His-Fe triad of heme peroxidases. More significantly, simplification of catalytic mechanisms through the incorporation of chemically optimized ligands may facilitate efforts to create and evolve new active site heme environments within proteins.

-	~~Authors~~:	+	A Chemically Programmed Proximal Ligand Enhances the Catalytic Properties of a Heme Enzyme.,Green AP, Hayashi T, Mittl PR, Hilvert D J Am Chem Soc. 2016 Sep 7;138(35):11344-52. doi: 10.1021/jacs.6b07029. Epub 2016 , Aug 26. PMID:27500802<ref>PMID:27500802</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5l86" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: L-ascorbate peroxidase]]
		+	[[Category: Hayashi, T]]
		+	[[Category: Hilvert, D]]
		+	[[Category: Mittl, P]]
		+	[[Category: Apx2]]
		+	[[Category: Heme]]
		+	[[Category: Methyl histidine]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Peroxidase]]
		+	[[Category: Protein engineering]]

OCA: Protected "5l86" [edit=sysop:move=sysop]

2016-06-20T14:01:18Z

Protected "5l86" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:01, 20 June 2016

OCA: New page: '''Unreleased structure''' The entry 5l86 is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

2016-06-20T14:01:17Z

New page: '''Unreleased structure''' The entry 5l86 is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5l86 is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]