7yas - Revision history

OCA at 18:11, 20 September 2023

OCA — Wed, 20 Sep 2023 18:11:24 GMT

←Older revision		Revision as of 18:11, 20 September 2023
Line 3:		Line 3:
	<StructureSection load='7yas' size='340' side='right'caption='[[7yas]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='7yas' size='340' side='right'caption='[[7yas]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7yas]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Hevbr Hevbr~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YAS OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=7YAS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7yas]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Hevea_brasiliensis Hevea brasiliensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YAS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7YAS FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)~~-1~~-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 1.75Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~HNL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=3981 HEVBR]~~)~~</td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[http://en.wikipedia.org/wiki/Lyase Lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.46 and 4.1.2.47 4.1.2.46 and 4.1.2.47]~~ </~~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=7yas FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yas OCA], [https://pdbe.org/7yas PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7yas RCSB], [https://www.ebi.ac.uk/pdbsum/7yas PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7yas 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=7yas FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yas OCA], [~~http~~://pdbe.org/7yas PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=7yas RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/7yas PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=7yas ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/HNL_HEVBR HNL_HEVBR]] Involved in cyanogenesis, the release of HCN from injured tissues. Decomposes a varieties of (R) or (S) cyanohydrins into HCN and the corresponding aldehydes and ketones. The natural substrate of this enzyme is (S)-acetone cyanohydrin.	+	[https://www.uniprot.org/uniprot/HNL_HEVBR HNL_HEVBR] Involved in cyanogenesis, the release of HCN from injured tissues. Decomposes a varieties of (R) or (S) cyanohydrins into HCN and the corresponding aldehydes and ketones. The natural substrate of this enzyme is (S)-acetone cyanohydrin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Hevbr~~]]	+	[[Category: Hevea brasiliensis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Lyase]]~~	+	[[Category: Gugganig M]]
-	[[Category: Gugganig, M]]	+	[[Category: Kratky C]]
-	[[Category: Kratky, C]]	+	[[Category: Wagner UG]]
-	[[Category: Wagner~~, U G~~]]	+	[[Category: Zuegg J]]
-	[[Category: Zuegg, J]]	+
-	~~[[Category: Cyanhydrin formation]]~~	+
-	~~[[Category: Cyanogenesis]]~~	+
-	~~[[Category: Oxynitrilase~~]]	+

OCA at 08:52, 6 November 2019

OCA — Wed, 06 Nov 2019 08:52:45 GMT

←Older revision		Revision as of 08:52, 6 November 2019
Line 1:		Line 1:

	==HYDROXYNITRILE LYASE, LOW TEMPERATURE NATIVE STRUCTURE==		==HYDROXYNITRILE LYASE, LOW TEMPERATURE NATIVE STRUCTURE==
-	<StructureSection load='7yas' size='340' side='right' caption='[[7yas]], [[Resolution\|resolution]] 1.75Å' scene=''>	+	<StructureSection load='7yas' size='340' side='right'caption='[[7yas]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7yas]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hevbr Hevbr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YAS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=7YAS FirstGlance]. <br>		<table><tr><td colspan='2'>[[7yas]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hevbr Hevbr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YAS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=7YAS FirstGlance]. <br>
Line 15:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ya/7yas_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ya/7yas_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 35:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Hevbr]]		[[Category: Hevbr]]
		+	[[Category: Large Structures]]
	[[Category: Lyase]]		[[Category: Lyase]]
	[[Category: Gugganig, M]]		[[Category: Gugganig, M]]

OCA at 00:39, 5 August 2016

OCA — Fri, 05 Aug 2016 00:39:06 GMT

←Older revision		Revision as of 00:39, 5 August 2016
Line 1:		Line 1:
		+
	==HYDROXYNITRILE LYASE, LOW TEMPERATURE NATIVE STRUCTURE==		==HYDROXYNITRILE LYASE, LOW TEMPERATURE NATIVE STRUCTURE==
	<StructureSection load='7yas' size='340' side='right' caption='[[7yas]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='7yas' size='340' side='right' caption='[[7yas]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7yas]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Hevea_brasiliensis Hevea brasiliensis~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YAS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=7YAS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7yas]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hevbr Hevbr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YAS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=7YAS FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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">HNL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3981 ~~Hevea brasiliensis~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HNL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3981 HEVBR])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/~~Hydroxynitrilase Hydroxynitrilase~~], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.37 4.1.2.37] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lyase Lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.46 and 4.1.2.47 4.1.2.46 and 4.1.2.47] </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=7yas FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yas OCA], [http://www.rcsb.org/pdb/explore.do?structureId=7yas RCSB], [http://www.ebi.ac.uk/pdbsum/7yas 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=7yas FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yas OCA], [http://pdbe.org/7yas PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=7yas RCSB], [http://www.ebi.ac.uk/pdbsum/7yas PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=7yas ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=7yas ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 28:		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 7yas" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Hevea brasiliensis~~]]	+	[[Category: Hevbr]]
-	[[Category: ~~Hydroxynitrilase~~]]	+	[[Category: Lyase]]
	[[Category: Gugganig, M]]		[[Category: Gugganig, M]]
	[[Category: Kratky, C]]		[[Category: Kratky, C]]
Line 40:		Line 42:
	[[Category: Cyanhydrin formation]]		[[Category: Cyanhydrin formation]]
	[[Category: Cyanogenesis]]		[[Category: Cyanogenesis]]
-	[[Category: Lyase]]
	[[Category: Oxynitrilase]]		[[Category: Oxynitrilase]]

OCA at 14:26, 25 December 2014

OCA — Thu, 25 Dec 2014 14:26:13 GMT

←Older revision		Revision as of 14:26, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7yas]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hevea_brasiliensis Hevea brasiliensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YAS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=7YAS FirstGlance]. <br>		<table><tr><td colspan='2'>[[7yas]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hevea_brasiliensis Hevea brasiliensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YAS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=7YAS FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HNL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3981 Hevea brasiliensis])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HNL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3981 Hevea brasiliensis])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Hydroxynitrilase Hydroxynitrilase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.37 4.1.2.37] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Hydroxynitrilase Hydroxynitrilase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.37 4.1.2.37] </span></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=7yas FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yas OCA], [http://www.rcsb.org/pdb/explore.do?structureId=7yas RCSB], [http://www.ebi.ac.uk/pdbsum/7yas 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=7yas FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yas OCA], [http://www.rcsb.org/pdb/explore.do?structureId=7yas RCSB], [http://www.ebi.ac.uk/pdbsum/7yas PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/HNL_HEVBR HNL_HEVBR]] Involved in cyanogenesis, the release of HCN from injured tissues. Decomposes a varieties of (R) or (S) cyanohydrins into HCN and the corresponding aldehydes and ketones. The natural substrate of this enzyme is (S)-acetone cyanohydrin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 34:
	[[Category: Hevea brasiliensis]]		[[Category: Hevea brasiliensis]]
	[[Category: Hydroxynitrilase]]		[[Category: Hydroxynitrilase]]
-	[[Category: Gugganig, M.]]	+	[[Category: Gugganig, M]]
-	[[Category: Kratky, C.]]	+	[[Category: Kratky, C]]
-	[[Category: Wagner, U G.]]	+	[[Category: Wagner, U G]]
-	[[Category: Zuegg, J.]]	+	[[Category: Zuegg, J]]
	[[Category: Cyanhydrin formation]]		[[Category: Cyanhydrin formation]]
	[[Category: Cyanogenesis]]		[[Category: Cyanogenesis]]
	[[Category: Lyase]]		[[Category: Lyase]]
	[[Category: Oxynitrilase]]		[[Category: Oxynitrilase]]

OCA at 08:02, 5 June 2014

OCA — Thu, 05 Jun 2014 08:02:49 GMT

←Older revision		Revision as of 08:02, 5 June 2014
Line 1:		Line 1:
-	[[~~Image:~~7yas.~~png~~\|~~left~~\|200px]]	+	==HYDROXYNITRILE LYASE, LOW TEMPERATURE NATIVE STRUCTURE==
		+	<StructureSection load='7yas' size='340' side='right' caption='[[7yas]], [[Resolution\|resolution]] 1.75Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[7yas]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hevea_brasiliensis Hevea brasiliensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YAS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=7YAS FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HNL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3981 Hevea brasiliensis])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Hydroxynitrilase Hydroxynitrilase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.37 4.1.2.37] </span></td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=7yas FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yas OCA], [http://www.rcsb.org/pdb/explore.do?structureId=7yas RCSB], [http://www.ebi.ac.uk/pdbsum/7yas 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/ya/7yas_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 3D structures of complexes between the hydroxynitrile lyase from Hevea brasiliensis (Hb-HNL) and several substrate and/or inhibitor molecules, including trichloracetaldehyde, hexafluoracetone, acetone, and rhodanide, were determined by X-ray crystallography. The complex with trichloracetaldehyde showed a covalent linkage between the protein and the inhibitor, which had apparently resulted from nucleophilic attack of the catalytic Ser80-Ogamma. All other complexes showed the substrate or inhibitor molecule merely hydrogen bonded to the protein. In addition, the native crystal structure of Hb-HNL was redetermined at cryo-temperature and at room temperature, eliminating previous uncertainties concerning residual electron density within the active site, and leading to the observation of two conserved water molecules. One of them was found to be conserved in all complex structures and appears to have mainly structural significance. The other water molecule is conserved in all structures except for the complex with rhodanide; it is hydrogen bonded to the imidazole of the catalytic His235 and appears to affect the Hb-HNL catalyzed reaction. The observed 3D structural data suggest implications for the enzyme mechanism. It appears that the enzyme-catalyzed cyanohydrin formation is unlikely to proceed via a hemiacetal or hemiketal intermediate covalently attached to the enzyme, despite the observation of such an intermediate for the complex with trichloracetaldehyde. Instead, the data are consistent with a mechanism where the incoming substrate is activated by hydrogen bonding with its carbonyl oxygen to the Ser80 and Thr11 hydroxy groups. A hydrogen cyanide molecule subsequently replaces a water molecule and is deprotonated presumably by the His235 base. Deprotonation is facilitated by the proximity of the positive charge of the Lys236 side chain.

-	<!--	+	Three-dimensional structures of enzyme-substrate complexes of the hydroxynitrile lyase from Hevea brasiliensis.,Zuegg J, Gruber K, Gugganig M, Wagner UG, Kratky C Protein Sci. 1999 Oct;8(10):1990-2000. PMID:10548044<ref>PMID:10548044</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_7yas"~~, ~~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_7yas\| PDB=7yas \| SCENE= }}~~	+

-	~~===HYDROXYNITRILE LYASE~~, ~~LOW TEMPERATURE NATIVE STRUCTURE===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_10548044}}, adds~~ the ~~Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 10548044 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_10548044}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[7yas]] is a 1 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Hevea_brasiliensis Hevea brasiliensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YAS OCA].~~	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:10548044<~~/~~ref~~><~~ref group="xtra">PMID:9094745</ref><ref group="xtra">PMID:8805565</ref><ref group="xtra">PMID:8621461</ref><references group="xtra"~~/>	+
	[[Category: Hevea brasiliensis]]		[[Category: Hevea brasiliensis]]
	[[Category: Hydroxynitrilase]]		[[Category: Hydroxynitrilase]]

OCA: Protected "7yas" [edit=sysop:move=sysop]

OCA — Mon, 14 Mar 2011 22:22:15 GMT

Protected "7yas" [edit=sysop:move=sysop]

←Older revision

Revision as of 22:22, 14 March 2011

OCA at 22:22, 14 March 2011

OCA — Mon, 14 Mar 2011 22:22:13 GMT

←Older revision		Revision as of 22:22, 14 March 2011
Line 1:		Line 1:
-	{{Seed}}
	[[Image:7yas.png\|left\|200px]]		[[Image:7yas.png\|left\|200px]]

Line 20:		Line 19:

	==About this Structure==		==About this Structure==
-	~~7YAS~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Hevea_brasiliensis Hevea brasiliensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YAS OCA].	+	[[7yas]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hevea_brasiliensis Hevea brasiliensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YAS OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:10548044</ref><ref group="xtra">PMID:9094745</ref><ref group="xtra">PMID:8805565</ref><ref group="xtra">PMID:8621461</ref><references group="xtra"/>		<ref group="xtra">PMID:10548044</ref><ref group="xtra">PMID:9094745</ref><ref group="xtra">PMID:8805565</ref><ref group="xtra">PMID:8621461</ref><references group="xtra"/>
	[[Category: Hevea brasiliensis]]		[[Category: Hevea brasiliensis]]
-	[[Category: ~~Transfered to EC 4 1.2 37~~]]	+	[[Category: Hydroxynitrilase]]
	[[Category: Gugganig, M.]]		[[Category: Gugganig, M.]]
	[[Category: Kratky, C.]]		[[Category: Kratky, C.]]
Line 34:		Line 33:
	[[Category: Lyase]]		[[Category: Lyase]]
	[[Category: Oxynitrilase]]		[[Category: Oxynitrilase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 18:39:57 2009''

OCA at 16:39, 17 February 2009

OCA — Tue, 17 Feb 2009 16:39:59 GMT

←Older revision		Revision as of 16:39, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	7YAS is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Hevea_brasiliensis Hevea brasiliensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YAS OCA].	+	7YAS is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Hevea_brasiliensis Hevea brasiliensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YAS OCA].

	==Reference==		==Reference==
-	Three-dimensional structures of enzyme-substrate complexes of the hydroxynitrile lyase from Hevea brasiliensis., Zuegg J, Gruber K, Gugganig M, Wagner UG, Kratky C, Protein Sci. 1999 Oct;8(10):1990-2000. PMID:~~[http:~~/~~/www.ncbi.nlm.nih.gov/pubmed/10548044 10548044]~~	+	<ref group="xtra">PMID:10548044</ref><ref group="xtra">PMID:9094745</ref><ref group="xtra">PMID:8805565</ref><ref group="xtra">PMID:8621461</ref><references group="xtra"/>
-		+
-	~~Hydroxynitrile lyase from Hevea brasiliensis: molecular characterization and mechanism of enzyme catalysis., Hasslacher M, Kratky C, Griengl H, Schwab H, Kohlwein SD, Proteins. 1997 Mar;27(3):438-49.~~ PMID:~~[http:~~/~~/www.ncbi.nlm.nih.gov/pubmed/9094745 9094745]~~	+
-		+
-	~~Mechanism of cyanogenesis: the crystal structure of hydroxynitrile lyase from Hevea brasiliensis., Wagner UG, Hasslacher M, Griengl H, Schwab H, Kratky C, Structure. 1996 Jul 15;4(7):811-22.~~ PMID:~~[http:~~/~~/www.ncbi.nlm.nih.gov/pubmed/8805565 8805565]~~	+
-		+
-	Molecular cloning of the full-length cDNA of (S)-hydroxynitrile lyase from Hevea brasiliensis. Functional expression in Escherichia coli and Saccharomyces cerevisiae and identification of an active site residue., Hasslacher M, Schall M, Hayn M, Griengl H, Kohlwein SD, Schwab H, J Biol Chem. 1996 Mar 8;271(10):5884-91. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/8621461 8621461]~~	+
	[[Category: Hevea brasiliensis]]		[[Category: Hevea brasiliensis]]
-	[[Category: Single protein]]
	[[Category: Transfered to EC 4 1.2 37]]		[[Category: Transfered to EC 4 1.2 37]]
	[[Category: Gugganig, M.]]		[[Category: Gugganig, M.]]
Line 42:		Line 35:
	[[Category: Oxynitrilase]]		[[Category: Oxynitrilase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue ~~Jul 29 02~~:40:~~11 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 18:39:57 2009''

OCA at 23:40, 28 July 2008

OCA — Mon, 28 Jul 2008 23:40:14 GMT

←Older revision		Revision as of 23:40, 28 July 2008
Line 24:		Line 24:
	==Reference==		==Reference==
	Three-dimensional structures of enzyme-substrate complexes of the hydroxynitrile lyase from Hevea brasiliensis., Zuegg J, Gruber K, Gugganig M, Wagner UG, Kratky C, Protein Sci. 1999 Oct;8(10):1990-2000. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10548044 10548044]		Three-dimensional structures of enzyme-substrate complexes of the hydroxynitrile lyase from Hevea brasiliensis., Zuegg J, Gruber K, Gugganig M, Wagner UG, Kratky C, Protein Sci. 1999 Oct;8(10):1990-2000. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10548044 10548044]
		+
		+	Hydroxynitrile lyase from Hevea brasiliensis: molecular characterization and mechanism of enzyme catalysis., Hasslacher M, Kratky C, Griengl H, Schwab H, Kohlwein SD, Proteins. 1997 Mar;27(3):438-49. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9094745 9094745]
		+
		+	Mechanism of cyanogenesis: the crystal structure of hydroxynitrile lyase from Hevea brasiliensis., Wagner UG, Hasslacher M, Griengl H, Schwab H, Kratky C, Structure. 1996 Jul 15;4(7):811-22. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8805565 8805565]
		+
		+	Molecular cloning of the full-length cDNA of (S)-hydroxynitrile lyase from Hevea brasiliensis. Functional expression in Escherichia coli and Saccharomyces cerevisiae and identification of an active site residue., Hasslacher M, Schall M, Hayn M, Griengl H, Kohlwein SD, Schwab H, J Biol Chem. 1996 Mar 8;271(10):5884-91. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8621461 8621461]
	[[Category: Hevea brasiliensis]]		[[Category: Hevea brasiliensis]]
	[[Category: Single protein]]		[[Category: Single protein]]
Line 36:		Line 42:
	[[Category: Oxynitrilase]]		[[Category: Oxynitrilase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Fri~~ Jul ~~11 12~~:54:35 2008''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 02:40:11 2008''

OCA at 09:54, 11 July 2008

OCA — Fri, 11 Jul 2008 09:54:36 GMT

←Older revision		Revision as of 09:54, 11 July 2008
Line 1:		Line 1:
-	[[Image:7yas.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:7yas.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_7yas\| PDB=7yas \| SCENE= }}		{{STRUCTURE_7yas\| PDB=7yas \| SCENE= }}

-	~~'''~~HYDROXYNITRILE LYASE, LOW TEMPERATURE NATIVE STRUCTURE~~'''~~	+	===HYDROXYNITRILE LYASE, LOW TEMPERATURE NATIVE STRUCTURE===


-	~~==Overview==~~	+	<!--
-	~~The 3D structures of complexes between the hydroxynitrile lyase from Hevea brasiliensis (Hb~~-~~HNL) and several substrate and/or inhibitor molecules, including trichloracetaldehyde, hexafluoracetone, acetone, and rhodanide, were determined by X~~-~~ray crystallography.~~ The ~~complex with trichloracetaldehyde showed a covalent linkage between the protein and the inhibitor~~, ~~which had apparently resulted from nucleophilic attack of the catalytic Ser80-Ogamma. All other complexes showed the substrate or inhibitor molecule merely hydrogen bonded to the protein. In addition~~, the native crystal structure of Hb-HNL was redetermined at cryo-temperature and at room temperature, eliminating previous uncertainties concerning residual electron density within the active site, and leading to the observation of two conserved water molecules. One of them was found to be conserved in all complex structures and appears to have mainly structural significance. The other water molecule is conserved in all structures except for the complex with rhodanide; it ~~is hydrogen bonded to the imidazole of the catalytic His235 and~~ appears ~~to affect the Hb-HNL catalyzed reaction~~. ~~The observed 3D structural data suggest implications for the enzyme mechanism~~. ~~It appears that the enzyme-catalyzed cyanohydrin formation is unlikely to proceed via a hemiacetal or hemiketal intermediate covalently attached to the enzyme~~, ~~despite the observation of such an intermediate for the complex with trichloracetaldehyde. Instead, the data are consistent with a mechanism~~ where ~~the incoming substrate~~ is ~~activated by hydrogen bonding with its carbonyl oxygen to~~ the Ser80 and Thr11 hydroxy groups. A hydrogen cyanide molecule subsequently replaces a water molecule and is deprotonated presumably by the His235 base. Deprotonation is facilitated by the proximity of the positive charge of the Lys236 side chain.	+	The line below this paragraph, {{ABSTRACT_PUBMED_10548044}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 10548044 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_10548044}}

	==About this Structure==		==About this Structure==
Line 31:		Line 35:
	[[Category: Lyase]]		[[Category: Lyase]]
	[[Category: Oxynitrilase]]		[[Category: Oxynitrilase]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May 4 22~~:48:06 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri Jul 11 12:54:35 2008''