9xim - Revision history

OCA at 09:45, 14 February 2024

OCA — Wed, 14 Feb 2024 09:45:27 GMT

←Older revision		Revision as of 09:45, 14 February 2024
Line 1:		Line 1:

	==PROTEIN ENGINEERING OF XYLOSE (GLUCOSE) ISOMERASE FROM ACTINOPLANES MISSOURIENSIS. 1. CRYSTALLOGRAPHY AND SITE-DIRECTED MUTAGENESIS OF METAL BINDING SITES==		==PROTEIN ENGINEERING OF XYLOSE (GLUCOSE) ISOMERASE FROM ACTINOPLANES MISSOURIENSIS. 1. CRYSTALLOGRAPHY AND SITE-DIRECTED MUTAGENESIS OF METAL BINDING SITES==
-	<StructureSection load='9xim' size='340' side='right' caption='[[9xim]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='9xim' size='340' side='right'caption='[[9xim]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[9xim]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Actmi Actmi~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9XIM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=9XIM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[9xim]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Actinoplanes_missouriensis Actinoplanes missouriensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9XIM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=9XIM FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=MN:MANGANESE+(II)+ION'>MN</scene~~>, ~~<scene name='pdbligand=XLS:D-XYLOSE+(LINEAR+FORM)'>XLS</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]] 2.4Å</td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[http:/~~/~~en.wikipedia.org/wiki/Xylose_isomerase Xylose isomerase]~~, ~~with EC number [http~~:~~//www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=5.3.1.5 5.3.1.5]~~ </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=XLS:D-XYLOSE+(LINEAR+FORM)'>XLS</scene></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=9xim FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9xim OCA], [~~http~~://pdbe.org/9xim PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=9xim RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/9xim PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=9xim 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=9xim FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9xim OCA], [https://pdbe.org/9xim PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=9xim RCSB], [https://www.ebi.ac.uk/pdbsum/9xim PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=9xim ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/XYLA_ACTM4 XYLA_ACTM4]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xi/9xim_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xi/9xim_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 18:		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=9xim 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=9xim ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The structure and function of the xylose (glucose) isomerase from Actinoplanes missouriensis have been analyzed by X-ray crystallography and site-directed mutagenesis after cloning and overexpression in Escherichia coli. The crystal structure of wild-type enzyme has been refined to an R factor of 15.2% against diffraction data to 2.2-A resolution. The structures of a number of binary and ternary complexes involving wild-type and mutant enzymes, the divalent cations Mg2+, Co2+, or Mn2+, and either the substrate xylose or substrate analogs have also been determined and refined to comparable R factors. Two metal sites are identified. Metal site 1 is four-coordinated and tetrahedral in the absence of substrate and is six-coordinated and octahedral in its presence; the O2 and O4 atoms of linear inhibitors and substrate bind to metal 1. Metal site 2 is octahedral in all cases; its position changes by 0.7 A when it binds O1 of the substrate and by more than 1 A when it also binds O2; these bonds replace bonds to carboxylate ligands from the protein. Side chains involved in metal binding have been substituted by site-directed mutagenesis. The biochemical properties of the mutant enzymes are presented. Together with structural data, they demonstrate that the two metal ions play an essential part in binding substrates, in stabilizing their open form, and in catalyzing hydride transfer between the C1 and C2 positions.
-
-	Protein engineering of xylose (glucose) isomerase from Actinoplanes missouriensis. 1. Crystallography and site-directed mutagenesis of metal binding sites.,Jenkins J, Janin J, Rey F, Chiadmi M, van Tilbeurgh H, Lasters I, De Maeyer M, Van Belle D, Wodak SJ, Lauwereys M, et al. Biochemistry. 1992 Jun 23;31(24):5449-58. PMID:1610791<ref>PMID:1610791</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 9xim" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
-	*[[D-xylose isomerase\|D-xylose isomerase]]	+	*[[D-xylose isomerase 3D structures\|D-xylose isomerase 3D structures]]
-	~~== References ==~~	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Actmi~~]]	+	[[Category: Actinoplanes missouriensis]]
-	[[Category: ~~Xylose isomerase~~]]	+	[[Category: Large Structures]]
-	[[Category: Janin, J]]	+	[[Category: Janin J]]

OCA at 10:25, 11 August 2016

OCA — Thu, 11 Aug 2016 10:25:31 GMT

←Older revision		Revision as of 10:25, 11 August 2016
Line 1:		Line 1:
		+
	==PROTEIN ENGINEERING OF XYLOSE (GLUCOSE) ISOMERASE FROM ACTINOPLANES MISSOURIENSIS. 1. CRYSTALLOGRAPHY AND SITE-DIRECTED MUTAGENESIS OF METAL BINDING SITES==		==PROTEIN ENGINEERING OF XYLOSE (GLUCOSE) ISOMERASE FROM ACTINOPLANES MISSOURIENSIS. 1. CRYSTALLOGRAPHY AND SITE-DIRECTED MUTAGENESIS OF METAL BINDING SITES==
	<StructureSection load='9xim' size='340' side='right' caption='[[9xim]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='9xim' size='340' side='right' caption='[[9xim]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[9xim]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Actinoplanes_missouriensis Actinoplanes missouriensis~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9XIM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=9XIM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[9xim]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Actmi Actmi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9XIM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=9XIM FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=XLS:D-XYLOSE+(LINEAR+FORM)'>XLS</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=XLS:D-XYLOSE+(LINEAR+FORM)'>XLS</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Xylose_isomerase Xylose isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.5 5.3.1.5] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Xylose_isomerase Xylose isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.5 5.3.1.5] </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=9xim FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9xim OCA], [http://www.rcsb.org/pdb/explore.do?structureId=9xim RCSB], [http://www.ebi.ac.uk/pdbsum/9xim 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=9xim FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9xim OCA], [http://pdbe.org/9xim PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=9xim RCSB], [http://www.ebi.ac.uk/pdbsum/9xim PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=9xim ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 15:		Line 16:
	<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=9xim ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 25:		Line 26:
	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 9xim" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 32:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Actinoplanes missouriensis~~]]	+	[[Category: Actmi]]
	[[Category: Xylose isomerase]]		[[Category: Xylose isomerase]]
	[[Category: Janin, J]]		[[Category: Janin, J]]

OCA at 09:40, 5 January 2015

OCA — Mon, 05 Jan 2015 09:40:38 GMT

←Older revision		Revision as of 09:40, 5 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[9xim]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Actinoplanes_missouriensis Actinoplanes missouriensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9XIM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=9XIM FirstGlance]. <br>		<table><tr><td colspan='2'>[[9xim]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Actinoplanes_missouriensis Actinoplanes missouriensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9XIM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=9XIM FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=XLS:D-XYLOSE+(LINEAR+FORM)'>XLS</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=XLS:D-XYLOSE+(LINEAR+FORM)'>XLS</scene></td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Xylose_isomerase Xylose isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.5 5.3.1.5] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Xylose_isomerase Xylose isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.5 5.3.1.5] </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=9xim FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9xim OCA], [http://www.rcsb.org/pdb/explore.do?structureId=9xim RCSB], [http://www.ebi.ac.uk/pdbsum/9xim 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=9xim FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9xim OCA], [http://www.rcsb.org/pdb/explore.do?structureId=9xim RCSB], [http://www.ebi.ac.uk/pdbsum/9xim 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 34:		Line 34:
	[[Category: Actinoplanes missouriensis]]		[[Category: Actinoplanes missouriensis]]
	[[Category: Xylose isomerase]]		[[Category: Xylose isomerase]]
-	[[Category: Janin, J.]]	+	[[Category: Janin, J]]

OCA: Protected "9xim" [edit=sysop:move=sysop]

OCA — Thu, 05 Jun 2014 09:18:13 GMT

Protected "9xim" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:18, 5 June 2014

OCA at 09:18, 5 June 2014

OCA — Thu, 05 Jun 2014 09:18:12 GMT

←Older revision		Revision as of 09:18, 5 June 2014
Line 1:		Line 1:
-	~~{{Seed}}~~	+	==PROTEIN ENGINEERING OF XYLOSE (GLUCOSE) ISOMERASE FROM ACTINOPLANES MISSOURIENSIS. 1. CRYSTALLOGRAPHY AND SITE-DIRECTED MUTAGENESIS OF METAL BINDING SITES==
-	[[~~Image~~:9xim.~~png\|left~~\|200px]]	+	<StructureSection load='9xim' size='340' side='right' caption='[[9xim]], [[Resolution\|resolution]] 2.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[9xim]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Actinoplanes_missouriensis Actinoplanes missouriensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9XIM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=9XIM FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=XLS:D-XYLOSE+(LINEAR+FORM)'>XLS</scene><br>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Xylose_isomerase Xylose isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.5 5.3.1.5] </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=9xim FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9xim OCA], [http://www.rcsb.org/pdb/explore.do?structureId=9xim RCSB], [http://www.ebi.ac.uk/pdbsum/9xim 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/xi/9xim_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The structure and function of the xylose (glucose) isomerase from Actinoplanes missouriensis have been analyzed by X-ray crystallography and site-directed mutagenesis after cloning and overexpression in Escherichia coli. The crystal structure of wild-type enzyme has been refined to an R factor of 15.2% against diffraction data to 2.2-A resolution. The structures of a number of binary and ternary complexes involving wild-type and mutant enzymes, the divalent cations Mg2+, Co2+, or Mn2+, and either the substrate xylose or substrate analogs have also been determined and refined to comparable R factors. Two metal sites are identified. Metal site 1 is four-coordinated and tetrahedral in the absence of substrate and is six-coordinated and octahedral in its presence; the O2 and O4 atoms of linear inhibitors and substrate bind to metal 1. Metal site 2 is octahedral in all cases; its position changes by 0.7 A when it binds O1 of the substrate and by more than 1 A when it also binds O2; these bonds replace bonds to carboxylate ligands from the protein. Side chains involved in metal binding have been substituted by site-directed mutagenesis. The biochemical properties of the mutant enzymes are presented. Together with structural data, they demonstrate that the two metal ions play an essential part in binding substrates, in stabilizing their open form, and in catalyzing hydride transfer between the C1 and C2 positions.

-	<!--	+	Protein engineering of xylose (glucose) isomerase from Actinoplanes missouriensis. 1. Crystallography and site-directed mutagenesis of metal binding sites.,Jenkins J, Janin J, Rey F, Chiadmi M, van Tilbeurgh H, Lasters I, De Maeyer M, Van Belle D, Wodak SJ, Lauwereys M, et al. Biochemistry. 1992 Jun 23;31(24):5449-58. PMID:1610791<ref>PMID:1610791</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_9xim"~~, ~~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_9xim\| PDB=9xim \| SCENE= }}~~	+

-	~~===PROTEIN ENGINEERING OF XYLOSE (GLUCOSE) ISOMERASE FROM ACTINOPLANES MISSOURIENSIS~~. 1. ~~CRYSTALLOGRAPHY AND SITE-DIRECTED MUTAGENESIS OF METAL BINDING SITES===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-		+	==See Also==
-	~~<!--~~	+	*[[D-xylose isomerase\|D-xylose isomerase]]
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_1610791}}, adds the Publication Abstract to the page~~	+	== References ==
-	~~(as it appears on PubMed at http://www.pubmed.gov), where 1610791 is the PubMed ID number.~~	+	<references/>
-	~~-->~~	+	__TOC__
-	~~{{ABSTRACT_PUBMED_1610791}}~~	+	</StructureSection>
-		+
-	==~~About this Structure~~==	+
-	~~9XIM is a 4 chains structure of sequences from~~ [~~http://en.wikipedia.org/wiki/Actinoplanes_missouriensis Actinoplanes missouriensis]. Full crystallographic information is available from~~ [~~http://oca.weizmann.ac.il/oca~~-~~bin/ocashort?id=9XIM OCA~~].	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:1610791<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Actinoplanes missouriensis]]		[[Category: Actinoplanes missouriensis]]
	[[Category: Xylose isomerase]]		[[Category: Xylose isomerase]]
	[[Category: Janin, J.]]		[[Category: Janin, J.]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 22:22:05 2009''

OCA at 20:22, 17 February 2009

OCA — Tue, 17 Feb 2009 20:22:07 GMT

←Older revision		Revision as of 20:22, 17 February 2009
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	==About this Structure==		==About this Structure==
-	9XIM is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Actinoplanes_missouriensis Actinoplanes missouriensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9XIM OCA].	+	9XIM is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Actinoplanes_missouriensis Actinoplanes missouriensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9XIM OCA].

	==Reference==		==Reference==
-	Protein engineering of xylose (glucose) isomerase from Actinoplanes missouriensis. 1. Crystallography and site-directed mutagenesis of metal binding sites., Jenkins J, Janin J, Rey F, Chiadmi M, van Tilbeurgh H, Lasters I, De Maeyer M, Van Belle D, Wodak SJ, Lauwereys M, et al., Biochemistry. 1992 Jun 23;31(24):5449-58. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/1610791 1610791]~~	+	<ref group="xtra">PMID:1610791</ref><references group="xtra"/>
	[[Category: Actinoplanes missouriensis]]		[[Category: Actinoplanes missouriensis]]
-	[[Category: Single protein]]
	[[Category: Xylose isomerase]]		[[Category: Xylose isomerase]]
	[[Category: Janin, J.]]		[[Category: Janin, J.]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Jun 30 15~~:18:~~43 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 22:22:05 2009''

OCA at 12:18, 30 June 2008

OCA — Mon, 30 Jun 2008 12:18:44 GMT

←Older revision		Revision as of 12:18, 30 June 2008
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-	[[Image:9xim.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:9xim.png\|left\|200px]]

	<!--		<!--
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	{{STRUCTURE_9xim\| PDB=9xim \| SCENE= }}		{{STRUCTURE_9xim\| PDB=9xim \| SCENE= }}

-	~~'''~~PROTEIN ENGINEERING OF XYLOSE (GLUCOSE) ISOMERASE FROM ACTINOPLANES MISSOURIENSIS. 1. CRYSTALLOGRAPHY AND SITE-DIRECTED MUTAGENESIS OF METAL BINDING SITES~~'''~~	+	===PROTEIN ENGINEERING OF XYLOSE (GLUCOSE) ISOMERASE FROM ACTINOPLANES MISSOURIENSIS. 1. CRYSTALLOGRAPHY AND SITE-DIRECTED MUTAGENESIS OF METAL BINDING SITES===


-	~~==Overview==~~	+	<!--
-	~~The structure and function of the xylose (glucose) isomerase from Actinoplanes missouriensis have been analyzed by X~~-~~ray crystallography and site~~-~~directed mutagenesis after cloning and overexpression in Escherichia coli.~~ The crystal structure of wild-type enzyme has been refined to an R factor of 15.2% against diffraction data to 2.2-A resolution. The structures of a number of binary and ternary complexes involving wild-type and mutant enzymes, ~~the divalent cations Mg2+~~, ~~Co2+, or Mn2+, and either~~ the ~~substrate xylose or substrate analogs have also been determined and refined~~ to ~~comparable R factors. Two metal sites are identified. Metal site 1 is four-coordinated and tetrahedral in~~ the absence of substrate and is six-coordinated and octahedral in its presence; the O2 and O4 atoms of linear inhibitors and substrate bind to metal 1. Metal site 2 is octahedral in all cases; its position changes by 0.7 A when it ~~binds O1 of the substrate and by more than 1 A when it also binds O2; these bonds replace bonds to carboxylate ligands from the protein~~. ~~Side chains involved in metal binding have been substituted by site-directed mutagenesis~~. ~~The biochemical properties of the mutant enzymes are presented. Together with structural data~~, ~~they demonstrate that~~ the ~~two metal ions play an essential part in binding substrates, in stabilizing their open form, and in catalyzing hydride transfer between the C1 and C2 positions~~.	+	The line below this paragraph, {{ABSTRACT_PUBMED_1610791}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 1610791 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_1610791}}

	==About this Structure==		==About this Structure==
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	[[Category: Xylose isomerase]]		[[Category: Xylose isomerase]]
	[[Category: Janin, J.]]		[[Category: Janin, J.]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May 4 22~~:55:22 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jun 30 15:18:43 2008''

OCA at 19:55, 4 May 2008

OCA — Sun, 04 May 2008 19:55:22 GMT

←Older revision		Revision as of 19:55, 4 May 2008
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	[[Image:9xim.gif\|left\|200px]]		[[Image:9xim.gif\|left\|200px]]

-	~~{{Structure~~	+	<!--
-	~~\|PDB= 9xim \|SIZE=350\|CAPTION= <scene name='initialview01'>9xim</scene>~~, ~~resolution 2~~.~~4Å~~	+	The line below this paragraph, containing "STRUCTURE_9xim", creates the "Structure Box" on the page.
-	~~\|SITE=~~	+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	~~\|LIGAND= <~~scene ~~name='pdbligand=MN:MANGANESE+(II~~)~~+ION'>MN</scene>~~, ~~<scene name='pdbligand=XLS:D-XYLOSE+(LINEAR+FORM)'>XLS</scene>~~	+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	~~\|ACTIVITY= <span class='plainlinks'>[http://en~~.~~wikipedia.org/wiki/Xylose_isomerase Xylose isomerase], with EC number [http://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=5.3.1.5 5.3.1.5] </span~~>	+	or leave the SCENE parameter empty for the default display.
-	\|~~GENE~~=	+	-->
-	\|~~DOMAIN~~=	+	{{STRUCTURE_9xim\| PDB=9xim \| SCENE= }}
-	~~\|RELATEDENTRY=~~	+
-	\|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=9xim FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9xim OCA], [http://www.ebi.ac.uk/pdbsum/9xim PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=9xim RCSB]</span>	+
-	}}	+

	'''PROTEIN ENGINEERING OF XYLOSE (GLUCOSE) ISOMERASE FROM ACTINOPLANES MISSOURIENSIS. 1. CRYSTALLOGRAPHY AND SITE-DIRECTED MUTAGENESIS OF METAL BINDING SITES'''		'''PROTEIN ENGINEERING OF XYLOSE (GLUCOSE) ISOMERASE FROM ACTINOPLANES MISSOURIENSIS. 1. CRYSTALLOGRAPHY AND SITE-DIRECTED MUTAGENESIS OF METAL BINDING SITES'''
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	[[Category: Xylose isomerase]]		[[Category: Xylose isomerase]]
	[[Category: Janin, J.]]		[[Category: Janin, J.]]
-	~~[[Category: isomerase(intramolecular oxidoreductse)]]~~	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 22:55:22 2008''
-		+
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Mar 31 05~~:46:40 2008''	+

OCA at 02:46, 31 March 2008

OCA — Mon, 31 Mar 2008 02:46:40 GMT

←Older revision		Revision as of 02:46, 31 March 2008
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	\|PDB= 9xim \|SIZE=350\|CAPTION= <scene name='initialview01'>9xim</scene>, resolution 2.4Å		\|PDB= 9xim \|SIZE=350\|CAPTION= <scene name='initialview01'>9xim</scene>, resolution 2.4Å
	\|SITE=		\|SITE=
-	\|LIGAND= <scene name='pdbligand=~~XLS~~:~~D-XYLOSE~~+(~~LINEAR~~+~~FORM)~~'>~~XLS~~</scene> ~~and~~ <scene name='pdbligand=MN:~~MANGANESE~~ (II) ~~ION~~'>MN</scene>	+	\|LIGAND= <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=XLS:D-XYLOSE+(LINEAR+FORM)'>XLS</scene>
-	\|ACTIVITY= [http://en.wikipedia.org/wiki/Xylose_isomerase Xylose isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.5 5.3.1.5]	+	\|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Xylose_isomerase Xylose isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.5 5.3.1.5] </span>
	\|GENE=		\|GENE=
		+	\|DOMAIN=
		+	\|RELATEDENTRY=
		+	\|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=9xim FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9xim OCA], [http://www.ebi.ac.uk/pdbsum/9xim PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=9xim RCSB]</span>
	}}		}}

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	[[Category: Xylose isomerase]]		[[Category: Xylose isomerase]]
	[[Category: Janin, J.]]		[[Category: Janin, J.]]
-	[[Category: MN]]
-	[[Category: XLS]]
	[[Category: isomerase(intramolecular oxidoreductse)]]		[[Category: isomerase(intramolecular oxidoreductse)]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu~~ Mar ~~20 19~~:16:49 2008''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:46:40 2008''

OCA at 17:16, 20 March 2008

OCA — Thu, 20 Mar 2008 17:16:49 GMT

←Older revision		Revision as of 17:16, 20 March 2008
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-	[[Image:9xim.gif\|left\|200px]]~~<br /><applet load~~="9xim~~" size~~="350~~" color~~=~~"white" frame~~=~~"true" align="right" spinBox="true"~~	+	[[Image:9xim.gif\|left\|200px]]
-	~~caption="~~9xim, resolution 2.4Å" />	+
-	'''PROTEIN ENGINEERING OF XYLOSE (GLUCOSE) ISOMERASE FROM ACTINOPLANES MISSOURIENSIS. 1. CRYSTALLOGRAPHY AND SITE-DIRECTED MUTAGENESIS OF METAL BINDING SITES'''~~<br />~~	+	{{Structure
		+	\|PDB= 9xim \|SIZE=350\|CAPTION= <scene name='initialview01'>9xim</scene>, resolution 2.4Å
		+	\|SITE=
		+	\|LIGAND= <scene name='pdbligand=XLS:D-XYLOSE+(LINEAR+FORM)'>XLS</scene> and <scene name='pdbligand=MN:MANGANESE (II) ION'>MN</scene>
		+	\|ACTIVITY= [http://en.wikipedia.org/wiki/Xylose_isomerase Xylose isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.5 5.3.1.5]
		+	\|GENE=
		+	}}
		+
		+	'''PROTEIN ENGINEERING OF XYLOSE (GLUCOSE) ISOMERASE FROM ACTINOPLANES MISSOURIENSIS. 1. CRYSTALLOGRAPHY AND SITE-DIRECTED MUTAGENESIS OF METAL BINDING SITES'''
		+

	==Overview==		==Overview==
Line 7:		Line 16:

	==About this Structure==		==About this Structure==
-	9XIM is a [~~http://en.wikipedia.org/wiki/Single_protein~~ Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Actinoplanes_missouriensis Actinoplanes missouriensis] ~~with <scene name='pdbligand=XLS:'>XLS</scene> and <scene name='pdbligand=MN:'>MN</scene> as [http://en~~.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Xylose_isomerase Xylose isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.5 5.3.1.5] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9XIM OCA].	+	9XIM is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Actinoplanes_missouriensis Actinoplanes missouriensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9XIM OCA].

	==Reference==		==Reference==
-	Protein engineering of xylose (glucose) isomerase from Actinoplanes missouriensis. 1. Crystallography and site-directed mutagenesis of metal binding sites., Jenkins J, Janin J, Rey F, Chiadmi M, van Tilbeurgh H, Lasters I, De Maeyer M, Van Belle D, Wodak SJ, Lauwereys M, et al., Biochemistry. 1992 Jun 23;31(24):5449-58. PMID:[http://~~ispc~~.~~weizmann~~.ac.~~il/~~/~~pmbin~~/~~getpm?pmid=~~1610791 1610791]	+	Protein engineering of xylose (glucose) isomerase from Actinoplanes missouriensis. 1. Crystallography and site-directed mutagenesis of metal binding sites., Jenkins J, Janin J, Rey F, Chiadmi M, van Tilbeurgh H, Lasters I, De Maeyer M, Van Belle D, Wodak SJ, Lauwereys M, et al., Biochemistry. 1992 Jun 23;31(24):5449-58. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/1610791 1610791]
	[[Category: Actinoplanes missouriensis]]		[[Category: Actinoplanes missouriensis]]
	[[Category: Single protein]]		[[Category: Single protein]]
Line 19:		Line 28:
	[[Category: isomerase(intramolecular oxidoreductse)]]		[[Category: isomerase(intramolecular oxidoreductse)]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu ~~Feb 21~~ 19:18:56 2008''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 19:16:49 2008''