4asm - Revision history

OCA at 11:34, 20 December 2023

2023-12-20T11:34:49Z

← Older revision		Revision as of 11:34, 20 December 2023
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	<StructureSection load='4asm' size='340' side='right'caption='[[4asm]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='4asm' size='340' side='right'caption='[[4asm]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4asm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"cytophaga_drobachiensis"_barbeyron_et_al._1998 "cytophaga drobachiensis" barbeyron et al. 1998~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ASM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ASM FirstGlance]. <br>		<table><tr><td colspan='2'>[[4asm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Zobellia_galactanivorans Zobellia galactanivorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ASM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ASM FirstGlance]. <br>
	</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=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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]] 1.5Å</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Beta-agarase Beta-agarase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.81 3.2.1.81] </span></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=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></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=4asm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4asm OCA], [https://pdbe.org/4asm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4asm RCSB], [https://www.ebi.ac.uk/pdbsum/4asm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4asm 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=4asm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4asm OCA], [https://pdbe.org/4asm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4asm RCSB], [https://www.ebi.ac.uk/pdbsum/4asm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4asm ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/AGAD_ZOBGA AGAD_ZOBGA]] Cleaves the beta-1,4-linkages between beta-D-galactose and alpha-L-3,6-anhydro-galactose residues in agarose. Cleaves agarose in a random manner with retention of the anomeric-bond configuration, producing beta-anomers that give rise progressively to alpha-anomers when mutarotation takes place. Requires at least 4 consecutive agarose units and is highly intolerant to modifications.<ref>PMID:22778272</ref>		[https://www.uniprot.org/uniprot/AGAD_ZOBGA AGAD_ZOBGA] Cleaves the beta-1,4-linkages between beta-D-galactose and alpha-L-3,6-anhydro-galactose residues in agarose. Cleaves agarose in a random manner with retention of the anomeric-bond configuration, producing beta-anomers that give rise progressively to alpha-anomers when mutarotation takes place. Requires at least 4 consecutive agarose units and is highly intolerant to modifications.<ref>PMID:22778272</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	~~[[Category: Cytophaga drobachiensis barbeyron et al. 1998]]~~
	~~[[Category: Beta-agarase]]~~
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Bernard, T]]		[[Category: Zobellia galactanivorans]]
	[[Category: Correc, G]]		[[Category: Bernard T]]
	[[Category: Czjzek, M]]		[[Category: Correc G]]
	[[Category: Hehemann~~, J H~~]]		[[Category: Czjzek M]]
	[[Category: Michel, G]]		[[Category: Hehemann JH]]
	~~[[Category: Endo-beta-agarase]]~~		[[Category: Michel G]]
	~~[[Category: Glycoside hydrolase]]~~
	~~[[Category: Hydrolase~~]]

OCA at 05:44, 25 August 2022

2022-08-25T05:44:58Z

← Older revision		Revision as of 05:44, 25 August 2022
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	<StructureSection load='4asm' size='340' side='right'caption='[[4asm]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='4asm' size='340' side='right'caption='[[4asm]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4asm]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"cytophaga_drobachiensis"_barbeyron_et_al._1998 "cytophaga drobachiensis" barbeyron et al. 1998]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ASM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4ASM FirstGlance]. <br>		<table><tr><td colspan='2'>[[4asm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"cytophaga_drobachiensis"_barbeyron_et_al._1998 "cytophaga drobachiensis" barbeyron et al. 1998]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ASM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ASM 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=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>		</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=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Beta-agarase Beta-agarase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.81 3.2.1.81] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Beta-agarase Beta-agarase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.81 3.2.1.81] </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=4asm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4asm OCA], [~~http~~://pdbe.org/4asm PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4asm RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4asm PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4asm 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=4asm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4asm OCA], [https://pdbe.org/4asm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4asm RCSB], [https://www.ebi.ac.uk/pdbsum/4asm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4asm ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/AGAD_ZOBGA AGAD_ZOBGA]] Cleaves the beta-1,4-linkages between beta-D-galactose and alpha-L-3,6-anhydro-galactose residues in agarose. Cleaves agarose in a random manner with retention of the anomeric-bond configuration, producing beta-anomers that give rise progressively to alpha-anomers when mutarotation takes place. Requires at least 4 consecutive agarose units and is highly intolerant to modifications.<ref>PMID:22778272</ref>		[[https://www.uniprot.org/uniprot/AGAD_ZOBGA AGAD_ZOBGA]] Cleaves the beta-1,4-linkages between beta-D-galactose and alpha-L-3,6-anhydro-galactose residues in agarose. Cleaves agarose in a random manner with retention of the anomeric-bond configuration, producing beta-anomers that give rise progressively to alpha-anomers when mutarotation takes place. Requires at least 4 consecutive agarose units and is highly intolerant to modifications.<ref>PMID:22778272</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 07:23, 10 July 2019

2019-07-10T07:23:27Z

← Older revision		Revision as of 07:23, 10 July 2019
Line 1:		Line 1:

	==Crystal structure of the catalytic domain of beta-agarase D from Zobellia galactanivorans==		==Crystal structure of the catalytic domain of beta-agarase D from Zobellia galactanivorans==
	<StructureSection load='4asm' size='340' side='right' caption='[[4asm]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='4asm' size='340' side='right'caption='[[4asm]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4asm]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"cytophaga_drobachiensis"_barbeyron_et_al._1998 "cytophaga drobachiensis" barbeyron et al. 1998]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ASM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ASM FirstGlance]. <br>		<table><tr><td colspan='2'>[[4asm]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"cytophaga_drobachiensis"_barbeyron_et_al._1998 "cytophaga drobachiensis" barbeyron et al. 1998]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ASM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ASM FirstGlance]. <br>
Line 25:		Line 25:
	[[Category: Cytophaga drobachiensis barbeyron et al. 1998]]		[[Category: Cytophaga drobachiensis barbeyron et al. 1998]]
	[[Category: Beta-agarase]]		[[Category: Beta-agarase]]
			[[Category: Large Structures]]
	[[Category: Bernard, T]]		[[Category: Bernard, T]]
	[[Category: Correc, G]]		[[Category: Correc, G]]

OCA at 23:19, 5 August 2016

2016-08-05T23:19:10Z

← Older revision		Revision as of 23:19, 5 August 2016
Line 1:		Line 1:

	==Crystal structure of the catalytic domain of beta-agarase D from Zobellia galactanivorans==		==Crystal structure of the catalytic domain of beta-agarase D from Zobellia galactanivorans==
	<StructureSection load='4asm' size='340' side='right' caption='[[4asm]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='4asm' size='340' side='right' caption='[[4asm]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4asm]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Zobellia_galactanivorans Zobellia galactanivorans~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ASM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ASM FirstGlance]. <br>		<table><tr><td colspan='2'>[[4asm]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"cytophaga_drobachiensis"_barbeyron_et_al._1998 "cytophaga drobachiensis" barbeyron et al. 1998]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ASM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ASM 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=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>		</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=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-agarase Beta-agarase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.81 3.2.1.81] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-agarase Beta-agarase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.81 3.2.1.81] </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=4asm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4asm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4asm RCSB], [http://www.ebi.ac.uk/pdbsum/4asm 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=4asm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4asm OCA], [http://pdbe.org/4asm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4asm RCSB], [http://www.ebi.ac.uk/pdbsum/4asm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4asm ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/~~D7GXG4_ZOBGA D7GXG4_ZOBGA~~]] Cleaves the beta-1,4-linkages between beta-D-galactose and alpha-L-3,6-anhydro-galactose residues in agarose. Cleaves agarose in a random manner with retention of the anomeric-bond configuration, producing beta-anomers that give rise progressively to alpha-anomers when mutarotation takes place. Requires at least 4 consecutive agarose units and is highly intolerant to modifications.		[[http://www.uniprot.org/uniprot/AGAD_ZOBGA AGAD_ZOBGA]] Cleaves the beta-1,4-linkages between beta-D-galactose and alpha-L-3,6-anhydro-galactose residues in agarose. Cleaves agarose in a random manner with retention of the anomeric-bond configuration, producing beta-anomers that give rise progressively to alpha-anomers when mutarotation takes place. Requires at least 4 consecutive agarose units and is highly intolerant to modifications.<ref>PMID:22778272</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 17:		Line 18:
	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 4asm" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Cytophaga drobachiensis barbeyron et al. 1998]]
	[[Category: Beta-agarase]]		[[Category: Beta-agarase]]
	~~[[Category: Zobellia galactanivorans]]~~
	[[Category: Bernard, T]]		[[Category: Bernard, T]]
	[[Category: Correc, G]]		[[Category: Correc, G]]

OCA at 22:47, 25 December 2014

2014-12-25T22:47:57Z

← Older revision		Revision as of 22:47, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4asm]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Zobellia_galactanivorans Zobellia galactanivorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ASM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ASM FirstGlance]. <br>		<table><tr><td colspan='2'>[[4asm]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Zobellia_galactanivorans Zobellia galactanivorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ASM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ASM 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=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-agarase Beta-agarase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.81 3.2.1.81] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-agarase Beta-agarase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.81 3.2.1.81] </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=4asm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4asm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4asm RCSB], [http://www.ebi.ac.uk/pdbsum/4asm 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=4asm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4asm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4asm RCSB], [http://www.ebi.ac.uk/pdbsum/4asm PDBsum]</span></td></tr>
	<table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/D7GXG4_ZOBGA D7GXG4_ZOBGA]] Cleaves the beta-1,4-linkages between beta-D-galactose and alpha-L-3,6-anhydro-galactose residues in agarose. Cleaves agarose in a random manner with retention of the anomeric-bond configuration, producing beta-anomers that give rise progressively to alpha-anomers when mutarotation takes place. Requires at least 4 consecutive agarose units and is highly intolerant to modifications.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 23:
	[[Category: Beta-agarase]]		[[Category: Beta-agarase]]
	[[Category: Zobellia galactanivorans]]		[[Category: Zobellia galactanivorans]]
	[[Category: Bernard, T.]]		[[Category: Bernard, T]]
	[[Category: Correc, G.]]		[[Category: Correc, G]]
	[[Category: Czjzek, M.]]		[[Category: Czjzek, M]]
	[[Category: Hehemann, J H.]]		[[Category: Hehemann, J H]]
	[[Category: Michel, G.]]		[[Category: Michel, G]]
	[[Category: Endo-beta-agarase]]		[[Category: Endo-beta-agarase]]
	[[Category: Glycoside hydrolase]]		[[Category: Glycoside hydrolase]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 10:23, 16 June 2014

2014-06-16T10:23:27Z

← Older revision		Revision as of 10:23, 16 June 2014
Line 1:		Line 1:
	[[~~Image~~:4asm.~~png\|left\|200px~~]]		==Crystal structure of the catalytic domain of beta-agarase D from Zobellia galactanivorans==
			<StructureSection load='4asm' size='340' side='right' caption='[[4asm]], [[Resolution\|resolution]] 1.50Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[4asm]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Zobellia_galactanivorans Zobellia galactanivorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ASM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ASM 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=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene><br>
			<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-agarase Beta-agarase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.81 3.2.1.81] </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=4asm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4asm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4asm RCSB], [http://www.ebi.ac.uk/pdbsum/4asm PDBsum]</span></td></tr>
			<table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Zobellia galactanivorans is an emerging model bacterium for the bioconversion of algal biomass. Notably this marine Bacteroidetes possesses a complex agarolytic system comprising 4 beta-agarases and 5 beta-porphyranases, all belonging to the glycoside hydrolase family 16. While beta-agarases are specific for the neutral agarobiose motives, the recently discovered beta-porphyranases degrade the sulfated polymers found in various quantities in natural agars. Here we report the biochemical and structural comparison of five beta-porphyranases and beta-agarases from Z. galactanivorans. The respective degradation patterns of two beta-porphyranases and three beta-agarases are analyzed by their action on defined hybrid oligosaccharides. In the light of the high resolution crystal structures the biochemical results allow a detailed mapping of substrate specificities along the enzymes active site groove. While PorA displays a strict requirement for C6-sulfate in the -2 and +1 binding subsites, PorB tolerates the presence of 3-6-anhydro-L-galactose in subsite -2. Both enzymes do not accept methylation of the galactose unit in the -1 subsite. The beta-agarase AgaD requires at least five consecutive agarose units (DP10) and is highly intolerant to modifications, whereas for AgaB oligosaccharides containing C6-sulfate groups at the -4, +1 and +3 positions are still degraded. Together with a transcriptional analysis of the expression of these enzymes, the structural and biochemical results allow proposition of a model scheme for the agarolytic system of Z. galactanivorans.

	~~{{STRUCTURE_4asm\| PDB=4asm \| SCENE= }}~~		Biochemical and structural characterization of the complex agarolytic enzyme system from the marine bacterium Zobellia galactanivorans.,Hehemann JH, Correc G, Thomas F, Bernard T, Barbeyron T, Jam M, Helbert W, Michel G, Czjzek M J Biol Chem. 2012 Jul 9. PMID:22778272<ref>PMID:22778272</ref>

	~~===Crystal structure~~ of the ~~catalytic domain of beta-agarase D from Zobellia galactanivorans===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_22778272}}~~		== References ==
			<references/>
	~~==About this Structure==~~		__TOC__
	~~[[4asm]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Zobellia_galactanivorans Zobellia galactanivorans]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=4ASM OCA].~~		</StructureSection>

	==~~Reference~~==
	<~~ref group="xtra">PMID:022778272<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Beta-agarase]]		[[Category: Beta-agarase]]
	[[Category: Zobellia galactanivorans]]		[[Category: Zobellia galactanivorans]]

OCA at 05:27, 12 September 2012

2012-09-12T05:27:08Z

← Older revision		Revision as of 05:27, 12 September 2012
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	[[Image:4asm.~~jpg~~\|left\|200px]]		[[Image:4asm.png\|left\|200px]]

	{{STRUCTURE_4asm\| PDB=4asm \| SCENE= }}		{{STRUCTURE_4asm\| PDB=4asm \| SCENE= }}

OCA at 07:09, 25 July 2012

2012-07-25T07:09:04Z

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
+[[Image:4asm.jpg|left|200px]]
-The entry 4asm is ON HOLD  until Paper Publication
+{{STRUCTURE_4asm|  PDB=4asm  |  SCENE=  }}
-Authors: Hehemann, J.H., Correc, G., Bernard, T., Michel, G., Czjzek, M.
+===Crystal structure of the catalytic domain of beta-agarase D from Zobellia galactanivorans===
-Description: Crystal structure of the catalytic domain of beta-agarase D from Zobellia galactanivorans
+{{ABSTRACT_PUBMED_22778272}}

OCA at 05:20, 30 May 2012

2012-05-30T05:20:50Z

← Older revision		Revision as of 05:20, 30 May 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 4asm is ON HOLD		The entry 4asm is ON HOLD until Paper Publication

	Authors: Hehemann, J.H., Correc, G., Bernard, T., Michel, G., Czjzek, M.		Authors: Hehemann, J.H., Correc, G., Bernard, T., Michel, G., Czjzek, M.

	Description: Crystal structure of the catalytic domain of beta-agarase D from Zobellia galactanivorans		Description: Crystal structure of the catalytic domain of beta-agarase D from Zobellia galactanivorans

OCA: Protected "4asm" [edit=sysop:move=sysop]

2012-05-09T08:42:10Z

Protected "4asm" [edit=sysop:move=sysop]

← Older revision	Revision as of 08:42, 9 May 2012
(No difference)