1mmz - Revision history

OCA at 07:46, 14 February 2024

2024-02-14T07:46:04Z

←Older revision		Revision as of 07:46, 14 February 2024
Line 3:		Line 3:
	<StructureSection load='1mmz' size='340' side='right'caption='[[1mmz]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1mmz' size='340' side='right'caption='[[1mmz]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1mmz]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacterium_lactis"_lister_1873 "bacterium~~ lactis~~" lister 1873~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MMZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1MMZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1mmz]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Lactococcus_lactis Lactococcus lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MMZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1MMZ FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ARB:BETA~~-~~L-ARABINOSE'>ARB</scene>~~, ~~<scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 1.8Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[1mmu\|1mmu]], [[1mmx\|1mmx]], [[1mmy\|1mmy]], [[1mn0\|1mn0]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ARB:BETA-L-ARABINOSE'>ARB</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>GALM ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~1358~~ "~~Bacterium lactis~~" ~~Lister 1873])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Aldose_1-epimerase Aldose 1-epimerase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.3 5.1.3.3]~~ </~~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=1mmz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mmz OCA], [https://pdbe.org/1mmz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1mmz RCSB], [https://www.ebi.ac.uk/pdbsum/1mmz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1mmz 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=1mmz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mmz OCA], [https://pdbe.org/1mmz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1mmz RCSB], [https://www.ebi.ac.uk/pdbsum/1mmz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1mmz ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q9ZB17_9LACT Q9ZB17_9LACT]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 20:		Line 20:
	</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=1mmz 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=1mmz ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Galactose mutarotase catalyzes the conversion of beta-D-galactose to alpha-D-galactose in the Leloir pathway for galactose metabolism. The high resolution x-ray structure of the dimeric enzyme from Lactococcus lactis was recently solved and shown to be topologically similar to the 18-stranded, anti-parallel beta-motif observed for domain 5 of beta-galactosidase. In addition to determining the overall molecular fold of galactose mutarotase, this initial investigation also provided a detailed description of the electrostatic interactions between the enzyme and its physiologically relevant substrate, galactose. Specifically, the side chains of His-96 and His-170 were shown to be located within hydrogen bonding distance to the C-5 oxygen of the substrate, while the carboxylate of Glu-304 was positioned near the C-1 hydroxyl group of the sugar. On the basis of this initial study, a possible role for Glu-304 as the general acid/base group in catalysis was put forth. Here we describe the combined x-ray crystallographic and kinetic analyses of L. lactis galactose mutarotase complexed with D-glucose, D-fucose, D-quinovose, L-arabinose, or D-xylose. These investigations have revealed that there are several distinct binding modes for these sugars, which are dependent upon the spatial orientation of the C-4 hydroxyl group. In those sugars with the same C-4 hydroxyl group orientation as galactose, their C-1 hydroxyl groups are invariably located near Glu-304. For those sugars, which have the same C-4 hydroxyl group configuration as glucose, the C-1 hydroxyls are typically located near Asp-243. These different binding modes correlate with both the observed kinetic parameters and the presence or absence of a hydrogen bond between the guanidinium group of Arg-71 and the C-4 hydroxyl group of the sugar ligand.
-
-	Structural and kinetic studies of sugar binding to galactose mutarotase from Lactococcus lactis.,Thoden JB, Kim J, Raushel FM, Holden HM J Biol Chem. 2002 Nov 22;277(47):45458-65. Epub 2002 Sep 5. PMID:12218067<ref>PMID:12218067</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1mmz" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Galactose mutarotase\|Galactose mutarotase]]		*[[Galactose mutarotase\|Galactose mutarotase]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacterium~~ lactis ~~lister 1873]]~~	+	[[Category: Lactococcus lactis]]
-	~~[[Category: Aldose 1-epimerase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Holden~~, H M~~]]	+	[[Category: Holden HM]]
-	[[Category: Kim, J]]	+	[[Category: Kim J]]
-	[[Category: Raushel~~, R M~~]]	+	[[Category: Raushel RM]]
-	[[Category: Thoden~~, J B]]~~	+	[[Category: Thoden JB]]
-	~~[[Category: Epimerase]]~~	+
-	~~[[Category: Galactosemia]]~~	+
-	~~[[Category: Isomerase]]~~	+
-	~~[[Category: Sugar binding~~]]	+

OCA at 14:56, 27 October 2021

2021-10-27T14:56:02Z

←Older revision		Revision as of 14:56, 27 October 2021
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	<StructureSection load='1mmz' size='340' side='right'caption='[[1mmz]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1mmz' size='340' side='right'caption='[[1mmz]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1mmz]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacterium_lactis"_lister_1873 "bacterium lactis" lister 1873]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MMZ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1MMZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1mmz]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacterium_lactis"_lister_1873 "bacterium lactis" lister 1873]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MMZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1MMZ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ARB:BETA-L-ARABINOSE'>ARB</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ARB:BETA-L-ARABINOSE'>ARB</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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;'>[[1mmu\|1mmu]], [[1mmx\|1mmx]], [[1mmy\|1mmy]], [[1mn0\|1mn0]]</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;'>[[1mmu\|1mmu]], [[1mmx\|1mmx]], [[1mmy\|1mmy]], [[1mn0\|1mn0]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GALM ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1358 "Bacterium lactis" Lister 1873])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GALM ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1358 "Bacterium lactis" Lister 1873])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Aldose_1-epimerase Aldose 1-epimerase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.3 5.1.3.3] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Aldose_1-epimerase Aldose 1-epimerase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.3 5.1.3.3] </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=1mmz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mmz OCA], [~~http~~://pdbe.org/1mmz PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1mmz RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1mmz PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1mmz 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=1mmz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mmz OCA], [https://pdbe.org/1mmz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1mmz RCSB], [https://www.ebi.ac.uk/pdbsum/1mmz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1mmz ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 08:39, 2 December 2020

2020-12-02T08:39:21Z

←Older revision		Revision as of 08:39, 2 December 2020
Line 1:		Line 1:

	==Crystal structure of galactose mutarotase from Lactococcus lactis complexed with L-arabinose==		==Crystal structure of galactose mutarotase from Lactococcus lactis complexed with L-arabinose==
-	<StructureSection load='1mmz' size='340' side='right' caption='[[1mmz]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='1mmz' size='340' side='right'caption='[[1mmz]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1mmz]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_lactis"_lister_1873 "bacterium lactis" lister 1873]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MMZ OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1MMZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1mmz]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_lactis"_lister_1873 "bacterium lactis" lister 1873]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MMZ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1MMZ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ARB:BETA-L-ARABINOSE'>ARB</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ARB:BETA-L-ARABINOSE'>ARB</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mmu\|1mmu]], [[1mmx\|1mmx]], [[1mmy\|1mmy]], [[1mn0\|1mn0]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1mmu\|1mmu]], [[1mmx\|1mmx]], [[1mmy\|1mmy]], [[1mn0\|1mn0]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GALM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1358 "Bacterium lactis" Lister 1873])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GALM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1358 "Bacterium lactis" Lister 1873])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aldose_1-epimerase Aldose 1-epimerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.3 5.1.3.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aldose_1-epimerase Aldose 1-epimerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.3 5.1.3.3] </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=1mmz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mmz OCA], [http://pdbe.org/1mmz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1mmz RCSB], [http://www.ebi.ac.uk/pdbsum/1mmz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1mmz 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=1mmz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mmz OCA], [http://pdbe.org/1mmz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1mmz RCSB], [http://www.ebi.ac.uk/pdbsum/1mmz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1mmz ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 14:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/mm/1mmz_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/mm/1mmz_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 29:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 1mmz" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1mmz" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Galactose mutarotase\|Galactose mutarotase]]
	== References ==		== References ==
	<references/>		<references/>
Line 35:		Line 38:
	[[Category: Bacterium lactis lister 1873]]		[[Category: Bacterium lactis lister 1873]]
	[[Category: Aldose 1-epimerase]]		[[Category: Aldose 1-epimerase]]
		+	[[Category: Large Structures]]
	[[Category: Holden, H M]]		[[Category: Holden, H M]]
	[[Category: Kim, J]]		[[Category: Kim, J]]

OCA at 14:19, 12 October 2017

2017-10-12T14:19:41Z

←Older revision		Revision as of 14:19, 12 October 2017
Line 1:		Line 1:
		+
	==Crystal structure of galactose mutarotase from Lactococcus lactis complexed with L-arabinose==		==Crystal structure of galactose mutarotase from Lactococcus lactis complexed with L-arabinose==
	<StructureSection load='1mmz' size='340' side='right' caption='[[1mmz]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1mmz' size='340' side='right' caption='[[1mmz]], [[Resolution\|resolution]] 1.80Å' scene=''>
Line 7:		Line 8:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GALM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1358 "Bacterium lactis" Lister 1873])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GALM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1358 "Bacterium lactis" Lister 1873])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aldose_1-epimerase Aldose 1-epimerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.3 5.1.3.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aldose_1-epimerase Aldose 1-epimerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.3 5.1.3.3] </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=1mmz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mmz OCA], [http://pdbe.org/1mmz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1mmz RCSB], [http://www.ebi.ac.uk/pdbsum/1mmz 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=1mmz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mmz OCA], [http://pdbe.org/1mmz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1mmz RCSB], [http://www.ebi.ac.uk/pdbsum/1mmz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1mmz ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 28:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 1mmz" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1mmz" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Galactose mutarotase\|Galactose mutarotase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 17:49, 9 February 2016

2016-02-09T17:49:46Z

←Older revision		Revision as of 17:49, 9 February 2016
Line 17:		Line 17:
	<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=1mmz ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 00:35, 11 September 2015

2015-09-11T00:35:25Z

←Older revision		Revision as of 00:35, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1mmz' size='340' side='right' caption='[[1mmz]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1mmz' size='340' side='right' caption='[[1mmz]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1mmz]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Lactococcus_lactis Lactococcus~~ lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MMZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1MMZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1mmz]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_lactis"_lister_1873 "bacterium lactis" lister 1873]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MMZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1MMZ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ARB:BETA-L-ARABINOSE'>ARB</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ARB:BETA-L-ARABINOSE'>ARB</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mmu\|1mmu]], [[1mmx\|1mmx]], [[1mmy\|1mmy]], [[1mn0\|1mn0]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mmu\|1mmu]], [[1mmx\|1mmx]], [[1mmy\|1mmy]], [[1mn0\|1mn0]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GALM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1358 ~~Lactococcus~~ lactis])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GALM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1358 "Bacterium lactis" Lister 1873])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aldose_1-epimerase Aldose 1-epimerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.3 5.1.3.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aldose_1-epimerase Aldose 1-epimerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.3 5.1.3.3] </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=1mmz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mmz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1mmz RCSB], [http://www.ebi.ac.uk/pdbsum/1mmz 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=1mmz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mmz OCA], [http://pdbe.org/1mmz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1mmz RCSB], [http://www.ebi.ac.uk/pdbsum/1mmz PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 27:		Line 27:
	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 1mmz" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacterium lactis lister 1873]]
	[[Category: Aldose 1-epimerase]]		[[Category: Aldose 1-epimerase]]
-	[[Category: Lactococcus lactis]]
	[[Category: Holden, H M]]		[[Category: Holden, H M]]
	[[Category: Kim, J]]		[[Category: Kim, J]]

OCA at 16:07, 5 January 2015

2015-01-05T16:07:05Z

←Older revision		Revision as of 16:07, 5 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1mmz]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Lactococcus_lactis Lactococcus lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MMZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1MMZ FirstGlance]. <br>		<table><tr><td colspan='2'>[[1mmz]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Lactococcus_lactis Lactococcus lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MMZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1MMZ FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ARB:BETA-L-ARABINOSE'>ARB</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ARB:BETA-L-ARABINOSE'>ARB</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mmu\|1mmu]], [[1mmx\|1mmx]], [[1mmy\|1mmy]], [[1mn0\|1mn0]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mmu\|1mmu]], [[1mmx\|1mmx]], [[1mmy\|1mmy]], [[1mn0\|1mn0]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GALM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1358 Lactococcus lactis])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GALM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1358 Lactococcus lactis])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aldose_1-epimerase Aldose 1-epimerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.3 5.1.3.3] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aldose_1-epimerase Aldose 1-epimerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.3 5.1.3.3] </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=1mmz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mmz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1mmz RCSB], [http://www.ebi.ac.uk/pdbsum/1mmz 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=1mmz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mmz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1mmz RCSB], [http://www.ebi.ac.uk/pdbsum/1mmz PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 36:
	[[Category: Aldose 1-epimerase]]		[[Category: Aldose 1-epimerase]]
	[[Category: Lactococcus lactis]]		[[Category: Lactococcus lactis]]
-	[[Category: Holden, H M.]]	+	[[Category: Holden, H M]]
-	[[Category: Kim, J.]]	+	[[Category: Kim, J]]
-	[[Category: Raushel, R M.]]	+	[[Category: Raushel, R M]]
-	[[Category: Thoden, J B.]]	+	[[Category: Thoden, J B]]
	[[Category: Epimerase]]		[[Category: Epimerase]]
	[[Category: Galactosemia]]		[[Category: Galactosemia]]
	[[Category: Isomerase]]		[[Category: Isomerase]]
	[[Category: Sugar binding]]		[[Category: Sugar binding]]

OCA at 14:40, 28 September 2014

2014-09-28T14:40:05Z

←Older revision		Revision as of 14:40, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1mmz.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of galactose mutarotase from Lactococcus lactis complexed with L-arabinose==
		+	<StructureSection load='1mmz' size='340' side='right' caption='[[1mmz]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1mmz]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Lactococcus_lactis Lactococcus lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MMZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1MMZ FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ARB:BETA-L-ARABINOSE'>ARB</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mmu\|1mmu]], [[1mmx\|1mmx]], [[1mmy\|1mmy]], [[1mn0\|1mn0]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GALM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1358 Lactococcus lactis])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aldose_1-epimerase Aldose 1-epimerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.3 5.1.3.3] </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=1mmz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mmz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1mmz RCSB], [http://www.ebi.ac.uk/pdbsum/1mmz 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/mm/1mmz_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 ==
		+	Galactose mutarotase catalyzes the conversion of beta-D-galactose to alpha-D-galactose in the Leloir pathway for galactose metabolism. The high resolution x-ray structure of the dimeric enzyme from Lactococcus lactis was recently solved and shown to be topologically similar to the 18-stranded, anti-parallel beta-motif observed for domain 5 of beta-galactosidase. In addition to determining the overall molecular fold of galactose mutarotase, this initial investigation also provided a detailed description of the electrostatic interactions between the enzyme and its physiologically relevant substrate, galactose. Specifically, the side chains of His-96 and His-170 were shown to be located within hydrogen bonding distance to the C-5 oxygen of the substrate, while the carboxylate of Glu-304 was positioned near the C-1 hydroxyl group of the sugar. On the basis of this initial study, a possible role for Glu-304 as the general acid/base group in catalysis was put forth. Here we describe the combined x-ray crystallographic and kinetic analyses of L. lactis galactose mutarotase complexed with D-glucose, D-fucose, D-quinovose, L-arabinose, or D-xylose. These investigations have revealed that there are several distinct binding modes for these sugars, which are dependent upon the spatial orientation of the C-4 hydroxyl group. In those sugars with the same C-4 hydroxyl group orientation as galactose, their C-1 hydroxyl groups are invariably located near Glu-304. For those sugars, which have the same C-4 hydroxyl group configuration as glucose, the C-1 hydroxyls are typically located near Asp-243. These different binding modes correlate with both the observed kinetic parameters and the presence or absence of a hydrogen bond between the guanidinium group of Arg-71 and the C-4 hydroxyl group of the sugar ligand.

-	~~{{STRUCTURE_1mmz\| PDB=1mmz \| SCENE= }}~~	+	Structural and kinetic studies of sugar binding to galactose mutarotase from Lactococcus lactis.,Thoden JB, Kim J, Raushel FM, Holden HM J Biol Chem. 2002 Nov 22;277(47):45458-65. Epub 2002 Sep 5. PMID:12218067<ref>PMID:12218067</ref>

-	~~===Crystal structure~~ of ~~galactose mutarotase from Lactococcus lactis complexed with L-arabinose===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_12218067}}~~	+	==See Also==
-		+	*[[Galactose mutarotase\|Galactose mutarotase]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~1mmz~~]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Lactococcus_lactis Lactococcus lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MMZ OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:012218067<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Aldose 1-epimerase]]		[[Category: Aldose 1-epimerase]]
	[[Category: Lactococcus lactis]]		[[Category: Lactococcus lactis]]

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

2012-12-05T20:20:58Z

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

←Older revision

Revision as of 20:20, 5 December 2012

OCA at 20:20, 5 December 2012

2012-12-05T20:20:54Z

←Older revision		Revision as of 20:20, 5 December 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1mmz.png\|left\|200px]]		[[Image:1mmz.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1mmz", 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_1mmz\| PDB=1mmz \| SCENE= }}		{{STRUCTURE_1mmz\| PDB=1mmz \| SCENE= }}

	===Crystal structure of galactose mutarotase from Lactococcus lactis complexed with L-arabinose===		===Crystal structure of galactose mutarotase from Lactococcus lactis complexed with L-arabinose===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_12218067}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 12218067 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_12218067}}		{{ABSTRACT_PUBMED_12218067}}

	==About this Structure==		==About this Structure==
-	~~1MMZ~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Lactococcus_lactis Lactococcus lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MMZ OCA].	+	[[1mmz]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Lactococcus_lactis Lactococcus lactis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MMZ OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~12218067~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:012218067</ref><references group="xtra"/>
	[[Category: Aldose 1-epimerase]]		[[Category: Aldose 1-epimerase]]
	[[Category: Lactococcus lactis]]		[[Category: Lactococcus lactis]]
Line 32:		Line 20:
	[[Category: Epimerase]]		[[Category: Epimerase]]
	[[Category: Galactosemia]]		[[Category: Galactosemia]]
		+	[[Category: Isomerase]]
	[[Category: Sugar binding]]		[[Category: Sugar binding]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 11:35:13 2009''