1sck - Revision history

OCA at 07:25, 25 October 2023

OCA — Wed, 25 Oct 2023 07:25:56 GMT

←Older revision		Revision as of 07:25, 25 October 2023
Line 3:		Line 3:
	<StructureSection load='1sck' size='340' side='right'caption='[[1sck]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='1sck' size='340' side='right'caption='[[1sck]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1sck]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Hevbr Hevbr~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SCK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1SCK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1sck]] 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=1SCK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1SCK FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ACN:ACETONE'>ACN</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]] 1.7Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[1qj4\|1qj4]], [[1yas\|1yas]], [[2yas\|2yas]], [[3yas\|3yas]], [[4yas\|4yas]], [[5yas\|5yas]], [[6yas\|6yas]], [[7yas\|7yas]], [[1sc9\|1sc9]], [[1sci\|1sci]], [[1scq\|1scq]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACN:ACETONE'>ACN</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 ([https://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~~'>~~[https://en.wikipedia.org/wiki/Lyase Lyase], with EC number [https://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=1sck FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sck OCA], [https://pdbe.org/1sck PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1sck RCSB], [https://www.ebi.ac.uk/pdbsum/1sck PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1sck 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=1sck FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sck OCA], [https://pdbe.org/1sck PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1sck RCSB], [https://www.ebi.ac.uk/pdbsum/1sck PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1sck ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[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.	+	[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 35:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Hevbr~~]]	+	[[Category: Hevea brasiliensis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Lyase]]~~	+	[[Category: Gartler G]]
-	[[Category: Gartler, G]]	+	[[Category: Gruber K]]
-	[[Category: Gruber, K]]	+	[[Category: Krammer B]]
-	[[Category: Krammer, B]]	+	[[Category: Kratky C]]
-	[[Category: Kratky, C]]	+	[[Category: Schwab H]]
-	[[Category: Schwab, H]]	+
-	~~[[Category: Alpha-beta hydrolase fold]]~~	+
-	~~[[Category: Catalytic triad]]~~	+
-	~~[[Category: Substrate complex~~]]	+

OCA at 06:28, 10 November 2021

OCA — Wed, 10 Nov 2021 06:28:47 GMT

OCA at 13:45, 16 December 2020

OCA — Wed, 16 Dec 2020 13:45:41 GMT

←Older revision		Revision as of 13:45, 16 December 2020
Line 1:		Line 1:

	==K236L mutant of hydroxynitrile lyase from Hevea brasiliensis in complex with acetone==		==K236L mutant of hydroxynitrile lyase from Hevea brasiliensis in complex with acetone==
-	<StructureSection load='1sck' size='340' side='right' caption='[[1sck]], [[Resolution\|resolution]] 1.70Å' scene=''>	+	<StructureSection load='1sck' size='340' side='right'caption='[[1sck]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1sck]] 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=1SCK OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1SCK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1sck]] 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=1SCK OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1SCK FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACN:ACETONE'>ACN</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=ACN:ACETONE'>ACN</scene>, <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">[[1qj4\|1qj4]], [[1yas\|1yas]], [[2yas\|2yas]], [[3yas\|3yas]], [[4yas\|4yas]], [[5yas\|5yas]], [[6yas\|6yas]], [[7yas\|7yas]], [[1sc9\|1sc9]], [[1sci\|1sci]], [[1scq\|1scq]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1qj4\|1qj4]], [[1yas\|1yas]], [[2yas\|2yas]], [[3yas\|3yas]], [[4yas\|4yas]], [[5yas\|5yas]], [[6yas\|6yas]], [[7yas\|7yas]], [[1sc9\|1sc9]], [[1sci\|1sci]], [[1scq\|1scq]]</div></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='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/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='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=1sck FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sck OCA], [http://pdbe.org/1sck PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1sck RCSB], [http://www.ebi.ac.uk/pdbsum/1sck PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1sck 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=1sck FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sck OCA], [http://pdbe.org/1sck PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1sck RCSB], [http://www.ebi.ac.uk/pdbsum/1sck PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1sck ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 16:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/sc/1sck_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/sc/1sck_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 36:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Hevbr]]		[[Category: Hevbr]]
		+	[[Category: Large Structures]]
	[[Category: Lyase]]		[[Category: Lyase]]
	[[Category: Gartler, G]]		[[Category: Gartler, G]]

OCA at 14:16, 12 October 2017

OCA — Thu, 12 Oct 2017 14:16:26 GMT

←Older revision		Revision as of 14:16, 12 October 2017
Line 1:		Line 1:
		+
	==K236L mutant of hydroxynitrile lyase from Hevea brasiliensis in complex with acetone==		==K236L mutant of hydroxynitrile lyase from Hevea brasiliensis in complex with acetone==
	<StructureSection load='1sck' size='340' side='right' caption='[[1sck]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='1sck' size='340' side='right' caption='[[1sck]], [[Resolution\|resolution]] 1.70Å' scene=''>
Line 7:		Line 8:
	<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='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/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='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=1sck FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sck OCA], [http://pdbe.org/1sck PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1sck RCSB], [http://www.ebi.ac.uk/pdbsum/1sck 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=1sck FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sck OCA], [http://pdbe.org/1sck PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1sck RCSB], [http://www.ebi.ac.uk/pdbsum/1sck PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1sck ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	<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=1sck ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 12:27, 11 September 2015

OCA — Fri, 11 Sep 2015 12:27:56 GMT

←Older revision		Revision as of 12:27, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1sck' size='340' side='right' caption='[[1sck]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='1sck' size='340' side='right' caption='[[1sck]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1sck]] 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=1SCK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1SCK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1sck]] 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=1SCK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1SCK FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACN:ACETONE'>ACN</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=ACN:ACETONE'>ACN</scene>, <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">[[1qj4\|1qj4]], [[1yas\|1yas]], [[2yas\|2yas]], [[3yas\|3yas]], [[4yas\|4yas]], [[5yas\|5yas]], [[6yas\|6yas]], [[7yas\|7yas]], [[1sc9\|1sc9]], [[1sci\|1sci]], [[1scq\|1scq]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qj4\|1qj4]], [[1yas\|1yas]], [[2yas\|2yas]], [[3yas\|3yas]], [[4yas\|4yas]], [[5yas\|5yas]], [[6yas\|6yas]], [[7yas\|7yas]], [[1sc9\|1sc9]], [[1sci\|1sci]], [[1scq\|1scq]]</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=1sck FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sck OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1sck RCSB], [http://www.ebi.ac.uk/pdbsum/1sck 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=1sck FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sck OCA], [http://pdbe.org/1sck PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1sck RCSB], [http://www.ebi.ac.uk/pdbsum/1sck PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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 1sck" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Hevea brasiliensis~~]]	+	[[Category: Hevbr]]
-	[[Category: ~~Hydroxynitrilase~~]]	+	[[Category: Lyase]]
	[[Category: Gartler, G]]		[[Category: Gartler, G]]
	[[Category: Gruber, K]]		[[Category: Gruber, K]]
Line 42:		Line 43:
	[[Category: Alpha-beta hydrolase fold]]		[[Category: Alpha-beta hydrolase fold]]
	[[Category: Catalytic triad]]		[[Category: Catalytic triad]]
-	[[Category: Lyase]]
	[[Category: Substrate complex]]		[[Category: Substrate complex]]

OCA at 16:26, 25 December 2014

OCA — Thu, 25 Dec 2014 16:26:53 GMT

←Older revision		Revision as of 16:26, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1sck]] 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=1SCK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1SCK FirstGlance]. <br>		<table><tr><td colspan='2'>[[1sck]] 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=1SCK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1SCK FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACN:ACETONE'>ACN</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=ACN:ACETONE'>ACN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qj4\|1qj4]], [[1yas\|1yas]], [[2yas\|2yas]], [[3yas\|3yas]], [[4yas\|4yas]], [[5yas\|5yas]], [[6yas\|6yas]], [[7yas\|7yas]], [[1sc9\|1sc9]], [[1sci\|1sci]], [[1scq\|1scq]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qj4\|1qj4]], [[1yas\|1yas]], [[2yas\|2yas]], [[3yas\|3yas]], [[4yas\|4yas]], [[5yas\|5yas]], [[6yas\|6yas]], [[7yas\|7yas]], [[1sc9\|1sc9]], [[1sci\|1sci]], [[1scq\|1scq]]</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=1sck FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sck OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1sck RCSB], [http://www.ebi.ac.uk/pdbsum/1sck 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=1sck FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sck OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1sck RCSB], [http://www.ebi.ac.uk/pdbsum/1sck 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 33:		Line 35:
	[[Category: Hevea brasiliensis]]		[[Category: Hevea brasiliensis]]
	[[Category: Hydroxynitrilase]]		[[Category: Hydroxynitrilase]]
-	[[Category: Gartler, G.]]	+	[[Category: Gartler, G]]
-	[[Category: Gruber, K.]]	+	[[Category: Gruber, K]]
-	[[Category: Krammer, B.]]	+	[[Category: Krammer, B]]
-	[[Category: Kratky, C.]]	+	[[Category: Kratky, C]]
-	[[Category: Schwab, H.]]	+	[[Category: Schwab, H]]
	[[Category: Alpha-beta hydrolase fold]]		[[Category: Alpha-beta hydrolase fold]]
	[[Category: Catalytic triad]]		[[Category: Catalytic triad]]
	[[Category: Lyase]]		[[Category: Lyase]]
	[[Category: Substrate complex]]		[[Category: Substrate complex]]

OCA at 15:15, 29 September 2014

OCA — Mon, 29 Sep 2014 15:15:03 GMT

←Older revision		Revision as of 15:15, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1sck.~~png~~\|~~left~~\|200px]]	+	==K236L mutant of hydroxynitrile lyase from Hevea brasiliensis in complex with acetone==
		+	<StructureSection load='1sck' size='340' side='right' caption='[[1sck]], [[Resolution\|resolution]] 1.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1sck]] 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=1SCK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1SCK FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACN:ACETONE'>ACN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qj4\|1qj4]], [[1yas\|1yas]], [[2yas\|2yas]], [[3yas\|3yas]], [[4yas\|4yas]], [[5yas\|5yas]], [[6yas\|6yas]], [[7yas\|7yas]], [[1sc9\|1sc9]], [[1sci\|1sci]], [[1scq\|1scq]]</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><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=1sck FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sck OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1sck RCSB], [http://www.ebi.ac.uk/pdbsum/1sck 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/sc/1sck_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 hydroxynitrile lyases (HNLs) from Hevea brasiliensis (HbHNL) and from Manihot esculenta (MeHNL) are both members of the alpha/beta-hydrolase superfamily. Mechanistic proposals have been put forward in the past for both enzymes; they differed with respect to the role of the active-site lysine residue for which a catalytic function was claimed for the Hevea enzyme but denied for the Manihot enzyme. We applied a freeze-quench method to prepare crystals of the complex of HbHNL with the biological substrate acetone cyanohydrin and determined its three-dimensional structure. Site-directed mutagenesis was used to prepare the mutant K236L, which is inactive although its three-dimensional structure is similar to the wild-type enzyme. However, the structure of the K236L-acetone cyanohydrin complex shows the substrate in a different orientation from the wild-type complex. Finite difference Poisson-Boltzmann calculations show that in the absence of Lys(236) the catalytic base His(235) would be protonated at neutral pH. All of this suggests that Lys(236) is instrumental for catalysis in several ways, i.e. by correctly positioning the substrate, by stabilizing the negatively charged reaction product CN(-), and by modulating the basicity of the catalytic base. These data complete the elucidation of the reaction mechanism of alpha/beta-hydrolase HNLs, in which the catalytic triad acts as a general base rather than as a nucleophile; proton abstraction from the substrate is performed by the serine, and reprotonation of the product cyanide is performed by the histidine residues. Together with a threonine side chain, the active-site serine and lysine are also involved in substrate binding.

-	~~{{STRUCTURE_1sck\| PDB=1sck \| SCENE= }}~~	+	Reaction mechanism of hydroxynitrile lyases of the alpha/beta-hydrolase superfamily: the three-dimensional structure of the transient enzyme-substrate complex certifies the crucial role of LYS236.,Gruber K, Gartler G, Krammer B, Schwab H, Kratky C J Biol Chem. 2004 May 7;279(19):20501-10. Epub 2004 Mar 3. PMID:14998991<ref>PMID:14998991</ref>

-	~~===K236L mutant~~ of ~~hydroxynitrile lyase from Hevea brasiliensis in complex with acetone===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_14998991}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1sck]] 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=1SCK OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:014998991<~~/~~ref~~><~~ref group="xtra">PMID:010494852</ref><references group="xtra"~~/>	+
	[[Category: Hevea brasiliensis]]		[[Category: Hevea brasiliensis]]
	[[Category: Hydroxynitrilase]]		[[Category: Hydroxynitrilase]]

OCA at 09:41, 16 January 2013

OCA — Wed, 16 Jan 2013 09:41:26 GMT

←Older revision		Revision as of 09:41, 16 January 2013
Line 1:		Line 1:
	[[Image:1sck.png\|left\|200px]]		[[Image:1sck.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1sck", 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_1sck\| PDB=1sck \| SCENE= }}		{{STRUCTURE_1sck\| PDB=1sck \| SCENE= }}

	===K236L mutant of hydroxynitrile lyase from Hevea brasiliensis in complex with acetone===		===K236L mutant of hydroxynitrile lyase from Hevea brasiliensis in complex with acetone===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_14998991}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 14998991 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_14998991}}		{{ABSTRACT_PUBMED_14998991}}

Line 22:		Line 11:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~14998991~~</ref><ref group="xtra">PMID:~~10494852</ref><ref group="xtra">PMID:10548044</ref><ref group="xtra">PMID:8805565~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:014998991</ref><ref group="xtra">PMID:010494852</ref><references group="xtra"/>
	[[Category: Hevea brasiliensis]]		[[Category: Hevea brasiliensis]]
	[[Category: Hydroxynitrilase]]		[[Category: Hydroxynitrilase]]

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

OCA — Mon, 14 Mar 2011 22:42:12 GMT

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

←Older revision

Revision as of 22:42, 14 March 2011

OCA at 22:42, 14 March 2011

OCA — Mon, 14 Mar 2011 22:42:10 GMT

←Older revision		Revision as of 22:42, 14 March 2011
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1sck.png\|left\|200px]]		[[Image:1sck.png\|left\|200px]]

Line 20:		Line 19:

	==About this Structure==		==About this Structure==
-	~~1SCK~~ 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=1SCK OCA].	+	[[1sck]] 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=1SCK OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:14998991</ref><ref group="xtra">PMID:10494852</ref><ref group="xtra">PMID:10548044</ref><ref group="xtra">PMID:8805565</ref><references group="xtra"/>		<ref group="xtra">PMID:14998991</ref><ref group="xtra">PMID:10494852</ref><ref group="xtra">PMID:10548044</ref><ref group="xtra">PMID:8805565</ref><references group="xtra"/>
	[[Category: Hevea brasiliensis]]		[[Category: Hevea brasiliensis]]
-	[[Category: ~~Transfered to EC 4 1.2 37~~]]	+	[[Category: Hydroxynitrilase]]
	[[Category: Gartler, G.]]		[[Category: Gartler, G.]]
	[[Category: Gruber, K.]]		[[Category: Gruber, K.]]
Line 33:		Line 32:
	[[Category: Alpha-beta hydrolase fold]]		[[Category: Alpha-beta hydrolase fold]]
	[[Category: Catalytic triad]]		[[Category: Catalytic triad]]
		+	[[Category: Lyase]]
	[[Category: Substrate complex]]		[[Category: Substrate complex]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 21:43:47 2009''

←Older revision		Revision as of 06:28, 10 November 2021
Line 3:		Line 3:
	<StructureSection load='1sck' size='340' side='right'caption='[[1sck]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='1sck' size='340' side='right'caption='[[1sck]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1sck]] 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=1SCK OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1SCK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1sck]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Hevbr Hevbr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SCK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1SCK FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACN:ACETONE'>ACN</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=ACN:ACETONE'>ACN</scene>, <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"><div style='overflow: auto; max-height: 3em;'>[[1qj4\|1qj4]], [[1yas\|1yas]], [[2yas\|2yas]], [[3yas\|3yas]], [[4yas\|4yas]], [[5yas\|5yas]], [[6yas\|6yas]], [[7yas\|7yas]], [[1sc9\|1sc9]], [[1sci\|1sci]], [[1scq\|1scq]]</div></td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1qj4\|1qj4]], [[1yas\|1yas]], [[2yas\|2yas]], [[3yas\|3yas]], [[4yas\|4yas]], [[5yas\|5yas]], [[6yas\|6yas]], [[7yas\|7yas]], [[1sc9\|1sc9]], [[1sci\|1sci]], [[1scq\|1scq]]</div></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='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HNL ([https://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/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='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Lyase Lyase], with EC number [https://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~~://proteopedia.org/fgij/fg.htm?mol=1sck FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sck OCA], [~~http~~://pdbe.org/1sck PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1sck RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1sck PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1sck 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=1sck FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sck OCA], [https://pdbe.org/1sck PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1sck RCSB], [https://www.ebi.ac.uk/pdbsum/1sck PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1sck 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]]