3lmw - Revision history

OCA at 16:24, 1 November 2023

OCA — Wed, 01 Nov 2023 16:24:30 GMT

←Older revision		Revision as of 16:24, 1 November 2023
Line 1:		Line 1:

	==Crystal structure of iota-carrageenase family GH82 from A. fortis in absence of chloride ions==		==Crystal structure of iota-carrageenase family GH82 from A. fortis in absence of chloride ions==
-	<StructureSection load='3lmw' size='340' side='right' caption='[[3lmw]], [[Resolution\|resolution]] 2.60Å' scene=''>	+	<StructureSection load='3lmw' size='340' side='right'caption='[[3lmw]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3lmw]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Altfo Altfo~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LMW OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3LMW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3lmw]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Alteromonas_macleodii Alteromonas macleodii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LMW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3LMW FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</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]] 2.6Å</td></tr>
-	~~<tr~~ id~~='related'><td class~~="~~sblockLbl~~">~~<b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1h80\|1h80]]~~, [[~~1ktw~~\|~~1ktw~~]]</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~cgiA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=116059 ALTFO])</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=3lmw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lmw OCA], [https://pdbe.org/3lmw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3lmw RCSB], [https://www.ebi.ac.uk/pdbsum/3lmw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3lmw 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/Iota-carrageenase Iota-carrageenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.157 3.2.1.157]~~ </~~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=3lmw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lmw OCA], [~~http~~://pdbe.org/3lmw PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3lmw RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3lmw PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3lmw ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~CGIA_ALTFO CGIA_ALTFO]~~] Hydrolyzes iota-carrageenans, sulfated 1,3-alpha-1,4-beta galactans from red algal cell walls, with an inversion of anomeric configuration. Also active against hybrid iota-/nu-carrageenan, not active against kappa- or lambda-carrageenans.<ref>PMID:10934194</ref> <ref>PMID:20227066</ref> ~~[UniProtKB:Q9F284]~~	+	[https://www.uniprot.org/uniprot/CGIA_ALTMA CGIA_ALTMA] Hydrolyzes iota-carrageenans, sulfated 1,3-alpha-1,4-beta galactans from red algal cell walls, with an inversion of anomeric configuration. Also active against hybrid iota-/nu-carrageenan, not active against kappa- or lambda-carrageenans.[UniProtKB:Q9F284]<ref>PMID:10934194</ref> <ref>PMID:20227066</ref>
	== 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: ~~Altfo~~]]	+	[[Category: Alteromonas macleodii]]
-	[[Category: ~~Iota-carrageenase~~]]	+	[[Category: Large Structures]]
-	[[Category: Barbeyron, T]]	+	[[Category: Barbeyron T]]
-	[[Category: Czjzek, M]]	+	[[Category: Czjzek M]]
-	[[Category: Jeudy, A]]	+	[[Category: Jeudy A]]
-	[[Category: Michel, G]]	+	[[Category: Michel G]]
-	[[Category: Rebuffet, E]]	+	[[Category: Rebuffet E]]
-	~~[[Category: Beta-helix fold]]~~	+
-	~~[[Category: Family gh82]]~~	+
-	~~[[Category: Glycoside hydrolase]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Marine bacterial enzyme~~]]	+

OCA at 06:47, 2 January 2019

OCA — Wed, 02 Jan 2019 06:47:25 GMT

←Older revision		Revision as of 06:47, 2 January 2019
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/lm/3lmw_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/lm/3lmw_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 08:48, 4 August 2016

OCA — Thu, 04 Aug 2016 08:48:25 GMT

←Older revision		Revision as of 08:48, 4 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of iota-carrageenase family GH82 from A. fortis in absence of chloride ions==		==Crystal structure of iota-carrageenase family GH82 from A. fortis in absence of chloride ions==
	<StructureSection load='3lmw' size='340' side='right' caption='[[3lmw]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='3lmw' size='340' side='right' caption='[[3lmw]], [[Resolution\|resolution]] 2.60Å' scene=''>
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	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cgiA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=116059 ALTFO])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cgiA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=116059 ALTFO])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Iota-carrageenase Iota-carrageenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.157 3.2.1.157] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Iota-carrageenase Iota-carrageenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.157 3.2.1.157] </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=3lmw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lmw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3lmw RCSB], [http://www.ebi.ac.uk/pdbsum/3lmw 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=3lmw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lmw OCA], [http://pdbe.org/3lmw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3lmw RCSB], [http://www.ebi.ac.uk/pdbsum/3lmw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3lmw ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	<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=3lmw ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 29:		Line 30:
	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 3lmw" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:29, 25 December 2014

OCA — Thu, 25 Dec 2014 07:29:54 GMT

←Older revision		Revision as of 07:29, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3lmw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Altfo Altfo]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LMW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LMW FirstGlance]. <br>		<table><tr><td colspan='2'>[[3lmw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Altfo Altfo]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LMW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LMW FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1h80\|1h80]], [[1ktw\|1ktw]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1h80\|1h80]], [[1ktw\|1ktw]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cgiA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=116059 ALTFO])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cgiA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=116059 ALTFO])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Iota-carrageenase Iota-carrageenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.157 3.2.1.157] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Iota-carrageenase Iota-carrageenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.157 3.2.1.157] </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=3lmw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lmw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3lmw RCSB], [http://www.ebi.ac.uk/pdbsum/3lmw 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=3lmw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lmw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3lmw RCSB], [http://www.ebi.ac.uk/pdbsum/3lmw PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CGIA_ALTFO CGIA_ALTFO]] Hydrolyzes iota-carrageenans, sulfated 1,3-alpha-1,4-beta galactans from red algal cell walls, with an inversion of anomeric configuration. Also active against hybrid iota-/nu-carrageenan, not active against kappa- or lambda-carrageenans.<ref>PMID:10934194</ref> <ref>PMID:20227066</ref> [UniProtKB:Q9F284]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 25:		Line 27:
	Identification of catalytic residues and mechanistic analysis of family GH82 iota-carrageenases.,Rebuffet E, Barbeyron T, Jeudy A, Jam M, Czjzek M, Michel G Biochemistry. 2010 Aug 3. PMID:20681629<ref>PMID:20681629</ref>		Identification of catalytic residues and mechanistic analysis of family GH82 iota-carrageenases.,Rebuffet E, Barbeyron T, Jeudy A, Jam M, Czjzek M, Michel G Biochemistry. 2010 Aug 3. PMID:20681629<ref>PMID:20681629</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, 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>
	== References ==		== References ==
Line 33:		Line 35:
	[[Category: Altfo]]		[[Category: Altfo]]
	[[Category: Iota-carrageenase]]		[[Category: Iota-carrageenase]]
-	[[Category: Barbeyron, T.]]	+	[[Category: Barbeyron, T]]
-	[[Category: Czjzek, M.]]	+	[[Category: Czjzek, M]]
-	[[Category: Jeudy, A.]]	+	[[Category: Jeudy, A]]
-	[[Category: Michel, G.]]	+	[[Category: Michel, G]]
-	[[Category: Rebuffet, E.]]	+	[[Category: Rebuffet, E]]
	[[Category: Beta-helix fold]]		[[Category: Beta-helix fold]]
	[[Category: Family gh82]]		[[Category: Family gh82]]
	[[Category: Glycoside hydrolase]]		[[Category: Glycoside hydrolase]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
-	[[Category: Iota-carrageenase]]
	[[Category: Marine bacterial enzyme]]		[[Category: Marine bacterial enzyme]]

OCA at 13:02, 18 May 2014

OCA — Sun, 18 May 2014 13:02:08 GMT

←Older revision		Revision as of 13:02, 18 May 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3lmw\| PDB=3lmw \| SCENE= }}~~	+	==Crystal structure of iota-carrageenase family GH82 from A. fortis in absence of chloride ions==
-	===Crystal structure of iota-carrageenase family GH82 from A. fortis in absence of chloride ions===	+	<StructureSection load='3lmw' size='340' side='right' caption='[[3lmw]], [[Resolution\|resolution]] 2.60Å' scene=''>
-	~~{{ABSTRACT_PUBMED_20681629}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3lmw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Altfo Altfo]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LMW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LMW FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1h80\|1h80]], [[1ktw\|1ktw]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cgiA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=116059 ALTFO])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Iota-carrageenase Iota-carrageenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.157 3.2.1.157] </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=3lmw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lmw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3lmw RCSB], [http://www.ebi.ac.uk/pdbsum/3lmw 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/lm/3lmw_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 ==
		+	Marine polysaccharide degrading enzymes, and iota-carrageenases in particular, have received little attention in the past, although their substrate specificity is of interest for biotechnological applications. This is mostly a consequence of the lack of data about their occurrence in the marine environment. Recent metagenomic data mining and the genome sequencing of a marine bacterium, Zobellia galactanivorans, led to the identification of three new iota-carrageenase genes belonging to the glycoside hydrolase family GH82. The additional sequences helped identify potential candidate residues as catalytic proton donor and nucleophile. We have identified the catalytic key residues experimentally by site directed mutagenesis and subsequent kinetic analysis for the iota-carrageenase from Alteromonas fortis CgiA1_Af. The kinetic analyses of the purified mutant enzymes confirm that E245 plays the role of the catalytic proton donor and D247 the general base that activates the catalytic water molecule. The point mutations of three other residues, namely Q222, H281 and Q310 in A. fortis, located in proximity of the active site also affect the enzyme activity. Our results indicate that E310 plays a role in stabilizing the substrate intermediate conformation, while H281 is involved in substrate binding and appears crucial for maintaining the protonation state of the catalytic proton donor E245. The third residue, Q222 that bridges the catalytic water molecule and a chloride ion, plays a crucial role in structuring the water network in the active site of A. fortis iota-carrageenase.

-	~~==About this Structure==~~	+	Identification of catalytic residues and mechanistic analysis of family GH82 iota-carrageenases.,Rebuffet E, Barbeyron T, Jeudy A, Jam M, Czjzek M, Michel G Biochemistry. 2010 Aug 3. PMID:20681629<ref>PMID:20681629</ref>
-	~~[[3lmw]] is a 2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Alteromonas Alteromonas]~~. ~~Full crystallographic information is available from [http~~:/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3LMW OCA].~~	+

-	==~~Reference~~==	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:020681629</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
-	[[Category: ~~Alteromonas~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Altfo]]
	[[Category: Iota-carrageenase]]		[[Category: Iota-carrageenase]]
	[[Category: Barbeyron, T.]]		[[Category: Barbeyron, T.]]

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

OCA — Wed, 10 Apr 2013 23:23:09 GMT

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

←Older revision

Revision as of 23:23, 10 April 2013

OCA at 23:23, 10 April 2013

OCA — Wed, 10 Apr 2013 23:23:07 GMT

←Older revision		Revision as of 23:23, 10 April 2013
Line 1:		Line 1:
-	{{Seed}}
-	[[Image:3lmw.jpg\|left\|200px]]
-
-	<!--
-	The line below this paragraph, containing "STRUCTURE_3lmw", 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_3lmw\| PDB=3lmw \| SCENE= }}		{{STRUCTURE_3lmw\| PDB=3lmw \| SCENE= }}
-
	===Crystal structure of iota-carrageenase family GH82 from A. fortis in absence of chloride ions===		===Crystal structure of iota-carrageenase family GH82 from A. fortis in absence of chloride ions===
-
-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_20681629}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 20681629 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_20681629}}		{{ABSTRACT_PUBMED_20681629}}

	==About this Structure==		==About this Structure==
-	~~3LMW~~ is a 2 ~~chains~~ structure with ~~sequences~~ from [http://en.wikipedia.org/wiki/Alteromonas Alteromonas]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LMW OCA].	+	[[3lmw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Alteromonas Alteromonas]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LMW OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~20681629~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020681629</ref><references group="xtra"/><references/>
	[[Category: Alteromonas]]		[[Category: Alteromonas]]
	[[Category: Iota-carrageenase]]		[[Category: Iota-carrageenase]]
Line 37:		Line 21:
	[[Category: Iota-carrageenase]]		[[Category: Iota-carrageenase]]
	[[Category: Marine bacterial enzyme]]		[[Category: Marine bacterial enzyme]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Aug 18 11:44:03 2010''

OCA at 07:36, 18 August 2010

OCA — Wed, 18 Aug 2010 07:36:31 GMT

←Older revision		Revision as of 07:36, 18 August 2010
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3lmw.jpg\|left\|200px]]

-	The ~~entry 3lmw~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3lmw", 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_3lmw\| PDB=3lmw \| SCENE= }}

-	~~Authors: Rebuffet, E., Barbeyron, T., Jeudy,~~ A.~~, Czjzek, M., Michel, G.~~	+	===Crystal structure of iota-carrageenase family GH82 from A. fortis in absence of chloride ions===

-	Description: Crystal structure of iota-carrageenase family GH82 from A. fortis in absence of chloride ions

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu Feb 25 13~~:02:52 2010''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_20681629}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 20681629 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_20681629}}
		+
		+	==About this Structure==
		+	3LMW is a 2 chains structure with sequences from [http://en.wikipedia.org/wiki/Alteromonas Alteromonas]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LMW OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:20681629</ref><references group="xtra"/>
		+	[[Category: Alteromonas]]
		+	[[Category: Iota-carrageenase]]
		+	[[Category: Barbeyron, T.]]
		+	[[Category: Czjzek, M.]]
		+	[[Category: Jeudy, A.]]
		+	[[Category: Michel, G.]]
		+	[[Category: Rebuffet, E.]]
		+	[[Category: Beta-helix fold]]
		+	[[Category: Family gh82]]
		+	[[Category: Glycoside hydrolase]]
		+	[[Category: Hydrolase]]
		+	[[Category: Iota-carrageenase]]
		+	[[Category: Marine bacterial enzyme]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Aug 18 11:44:03 2010''

OCA at 11:02, 25 February 2010

OCA — Thu, 25 Feb 2010 11:02:53 GMT

←Older revision		Revision as of 11:02, 25 February 2010
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3lmw is ON HOLD	+	The entry 3lmw is ON HOLD until Paper Publication

-	Authors: Rebuffet, E., Barbeyron, T., Jeudy, A., Czjzek, M. , Michel, G.	+	Authors: Rebuffet, E., Barbeyron, T., Jeudy, A., Czjzek, M., Michel, G.

-	Description: ~~crystal~~ structure of iota-carrageenase family GH82 from A. fortis in absence of chloride ions	+	Description: Crystal structure of iota-carrageenase family GH82 from A. fortis in absence of chloride ions

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed~~ Feb ~~10 16~~:59:49 2010''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 25 13:02:52 2010''

OCA: New page: '''Unreleased structure''' The entry 3lmw is ON HOLD Authors: Rebuffet, E., Barbeyron, T., Jeudy, A., Czjzek, M. , Michel, G. Description: crystal structure of iota-carrageenase family...

OCA — Wed, 10 Feb 2010 14:59:50 GMT

New page: '''Unreleased structure''' The entry 3lmw is ON HOLD Authors: Rebuffet, E., Barbeyron, T., Jeudy, A., Czjzek, M. , Michel, G. Description: crystal structure of iota-carrageenase family...

New page

'''Unreleased structure'''

The entry 3lmw is ON HOLD

Authors: Rebuffet, E., Barbeyron, T., Jeudy, A., Czjzek, M. , Michel, G.

Description: crystal structure of iota-carrageenase family GH82 from A. fortis in absence of chloride ions

''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 10 16:59:49 2010''