2oem - Revision history

OCA at 10:36, 30 August 2023

OCA — Wed, 30 Aug 2023 10:36:29 GMT

←Older revision		Revision as of 10:36, 30 August 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2oem]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_kaustophilus Geobacillus kaustophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OEM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2OEM FirstGlance]. <br>		<table><tr><td colspan='2'>[[2oem]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_kaustophilus Geobacillus kaustophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OEM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2OEM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1AE:(1Z)-2-HYDROXY-3-OXOHEX-1-EN-1-YL+DIHYDROGEN+PHOSPHATE'>1AE</scene>, <scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.7Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1AE:(1Z)-2-HYDROXY-3-OXOHEX-1-EN-1-YL+DIHYDROGEN+PHOSPHATE'>1AE</scene>, <scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=2oem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oem OCA], [https://pdbe.org/2oem PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2oem RCSB], [https://www.ebi.ac.uk/pdbsum/2oem PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2oem 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=2oem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oem OCA], [https://pdbe.org/2oem PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2oem RCSB], [https://www.ebi.ac.uk/pdbsum/2oem PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2oem ProSAT]</span></td></tr>
	</table>		</table>

OCA at 10:28, 15 March 2023

OCA — Wed, 15 Mar 2023 10:28:39 GMT

←Older revision		Revision as of 10:28, 15 March 2023
Line 3:		Line 3:
	<StructureSection load='2oem' size='340' side='right'caption='[[2oem]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='2oem' size='340' side='right'caption='[[2oem]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2oem]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_kaustophilus"_prickett_1928 "bacillus~~ kaustophilus~~" prickett 1928~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OEM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2OEM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2oem]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_kaustophilus Geobacillus kaustophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OEM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2OEM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1AE:(1Z)-2-HYDROXY-3-OXOHEX-1-EN-1-YL+DIHYDROGEN+PHOSPHATE'>1AE</scene>, ~~<scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1AE:(1Z)-2-HYDROXY-3-OXOHEX-1-EN-1-YL+DIHYDROGEN+PHOSPHATE'>1AE</scene>, <scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene><~~/td></tr>~~	+
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">mtnW ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1462 "Bacillus kaustophilus" Prickett 1928])~~</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=2oem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oem OCA], [https://pdbe.org/2oem PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2oem RCSB], [https://www.ebi.ac.uk/pdbsum/2oem PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2oem 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=2oem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oem OCA], [https://pdbe.org/2oem PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2oem RCSB], [https://www.ebi.ac.uk/pdbsum/2oem PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2oem ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/MTNW_GEOKA MTNW_GEOKA]] Catalyzes the enolization of 2,3-diketo-5-methylthiopentyl-1-phosphate (DK-MTP-1-P) into 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate (HK-MTPenyl-1-P).<ref>PMID:17352497</ref>	+	[https://www.uniprot.org/uniprot/MTNW_GEOKA MTNW_GEOKA] Catalyzes the enolization of 2,3-diketo-5-methylthiopentyl-1-phosphate (DK-MTP-1-P) into 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate (HK-MTPenyl-1-P).<ref>PMID:17352497</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 27:		Line 25:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ kaustophilus ~~prickett 1928~~]]	+	[[Category: Geobacillus kaustophilus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Almo~~, S C~~]]	+	[[Category: Almo SC]]
-	[[Category: Fedorov~~, A A~~]]	+	[[Category: Fedorov AA]]
-	[[Category: Fedorov~~, E V~~]]	+	[[Category: Fedorov EV]]
-	[[Category: Gerlt~~, J A~~]]	+	[[Category: Gerlt JA]]
-	[[Category: Imker~~, H J]]~~	+	[[Category: Imker HJ]]
-	~~[[Category: Enolase]]~~	+
-	~~[[Category: Isomerase]]~~	+
-	~~[[Category: Rubisco-like protein~~]]	+

OCA at 12:54, 9 June 2021

OCA — Wed, 09 Jun 2021 12:54:38 GMT

←Older revision		Revision as of 12:54, 9 June 2021
Line 1:		Line 1:

	==Crystal structure of a rubisco-like protein from Geobacillus kaustophilus liganded with Mg2+ and 2,3-diketohexane 1-phosphate==		==Crystal structure of a rubisco-like protein from Geobacillus kaustophilus liganded with Mg2+ and 2,3-diketohexane 1-phosphate==
-	<StructureSection load='2oem' size='340' side='right' caption='[[2oem]], [[Resolution\|resolution]] 1.70Å' scene=''>	+	<StructureSection load='2oem' size='340' side='right'caption='[[2oem]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2oem]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_kaustophilus"_prickett_1928 "bacillus kaustophilus" prickett 1928]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OEM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2OEM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2oem]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_kaustophilus"_prickett_1928 "bacillus kaustophilus" prickett 1928]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OEM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2OEM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1AE:(1Z)-2-HYDROXY-3-OXOHEX-1-EN-1-YL+DIHYDROGEN+PHOSPHATE'>1AE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1AE:(1Z)-2-HYDROXY-3-OXOHEX-1-EN-1-YL+DIHYDROGEN+PHOSPHATE'>1AE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtnW ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1462 "Bacillus kaustophilus" Prickett 1928])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtnW ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1462 "Bacillus kaustophilus" Prickett 1928])</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=2oem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oem OCA], [~~http~~://pdbe.org/2oem PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2oem RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2oem PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2oem 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=2oem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oem OCA], [https://pdbe.org/2oem PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2oem RCSB], [https://www.ebi.ac.uk/pdbsum/2oem PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2oem ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/MTNW_GEOKA MTNW_GEOKA]] Catalyzes the enolization of 2,3-diketo-5-methylthiopentyl-1-phosphate (DK-MTP-1-P) into 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate (HK-MTPenyl-1-P).<ref>PMID:17352497</ref>	+	[[https://www.uniprot.org/uniprot/MTNW_GEOKA MTNW_GEOKA]] Catalyzes the enolization of 2,3-diketo-5-methylthiopentyl-1-phosphate (DK-MTP-1-P) into 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate (HK-MTPenyl-1-P).<ref>PMID:17352497</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 22:

	==See Also==		==See Also==
-	*[[Enolase\|Enolase]]	+	*[[Enolase 3D structures\|Enolase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 28:		Line 28:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus kaustophilus prickett 1928]]		[[Category: Bacillus kaustophilus prickett 1928]]
		+	[[Category: Large Structures]]
	[[Category: Almo, S C]]		[[Category: Almo, S C]]
	[[Category: Fedorov, A A]]		[[Category: Fedorov, A A]]

OCA at 07:14, 22 August 2018

OCA — Wed, 22 Aug 2018 07:14:16 GMT

←Older revision		Revision as of 07:14, 22 August 2018
Line 1:		Line 1:
		+
	==Crystal structure of a rubisco-like protein from Geobacillus kaustophilus liganded with Mg2+ and 2,3-diketohexane 1-phosphate==		==Crystal structure of a rubisco-like protein from Geobacillus kaustophilus liganded with Mg2+ and 2,3-diketohexane 1-phosphate==
	<StructureSection load='2oem' size='340' side='right' caption='[[2oem]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='2oem' size='340' side='right' caption='[[2oem]], [[Resolution\|resolution]] 1.70Å' scene=''>
Line 6:		Line 7:
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtnW ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1462 "Bacillus kaustophilus" Prickett 1928])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtnW ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1462 "Bacillus kaustophilus" Prickett 1928])</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=2oem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oem OCA], [http://pdbe.org/2oem PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2oem RCSB], [http://www.ebi.ac.uk/pdbsum/2oem 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=2oem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oem OCA], [http://pdbe.org/2oem PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2oem RCSB], [http://www.ebi.ac.uk/pdbsum/2oem PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2oem ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 16:10, 11 September 2015

OCA — Fri, 11 Sep 2015 16:10:48 GMT

←Older revision		Revision as of 16:10, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2oem' size='340' side='right' caption='[[2oem]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='2oem' size='340' side='right' caption='[[2oem]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2oem]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Geobacillus_kaustophilus Geobacillus~~ kaustophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OEM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2OEM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2oem]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_kaustophilus"_prickett_1928 "bacillus kaustophilus" prickett 1928]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OEM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2OEM FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1AE:(1Z)-2-HYDROXY-3-OXOHEX-1-EN-1-YL+DIHYDROGEN+PHOSPHATE'>1AE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1AE:(1Z)-2-HYDROXY-3-OXOHEX-1-EN-1-YL+DIHYDROGEN+PHOSPHATE'>1AE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtnW ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1462 ~~Geobacillus~~ kaustophilus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtnW ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1462 "Bacillus kaustophilus" Prickett 1928])</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=2oem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oem OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2oem RCSB], [http://www.ebi.ac.uk/pdbsum/2oem 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=2oem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oem OCA], [http://pdbe.org/2oem PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2oem RCSB], [http://www.ebi.ac.uk/pdbsum/2oem PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		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 2oem" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 25:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Geobacillus~~ kaustophilus]]	+	[[Category: Bacillus kaustophilus prickett 1928]]
	[[Category: Almo, S C]]		[[Category: Almo, S C]]
	[[Category: Fedorov, A A]]		[[Category: Fedorov, A A]]

OCA at 18:50, 25 December 2014

OCA — Thu, 25 Dec 2014 18:50:40 GMT

←Older revision		Revision as of 18:50, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2oem]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacillus_kaustophilus Geobacillus kaustophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OEM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2OEM FirstGlance]. <br>		<table><tr><td colspan='2'>[[2oem]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacillus_kaustophilus Geobacillus kaustophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OEM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2OEM FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1AE:(1Z)-2-HYDROXY-3-OXOHEX-1-EN-1-YL+DIHYDROGEN+PHOSPHATE'>1AE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1AE:(1Z)-2-HYDROXY-3-OXOHEX-1-EN-1-YL+DIHYDROGEN+PHOSPHATE'>1AE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtnW ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1462 Geobacillus kaustophilus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtnW ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1462 Geobacillus kaustophilus])</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=2oem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oem OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2oem RCSB], [http://www.ebi.ac.uk/pdbsum/2oem 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=2oem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oem OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2oem RCSB], [http://www.ebi.ac.uk/pdbsum/2oem PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MTNW_GEOKA MTNW_GEOKA]] Catalyzes the enolization of 2,3-diketo-5-methylthiopentyl-1-phosphate (DK-MTP-1-P) into 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate (HK-MTPenyl-1-P).<ref>PMID:17352497</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 26:
	</StructureSection>		</StructureSection>
	[[Category: Geobacillus kaustophilus]]		[[Category: Geobacillus kaustophilus]]
-	[[Category: Almo, S C.]]	+	[[Category: Almo, S C]]
-	[[Category: Fedorov, A A.]]	+	[[Category: Fedorov, A A]]
-	[[Category: Fedorov, E V.]]	+	[[Category: Fedorov, E V]]
-	[[Category: Gerlt, J A.]]	+	[[Category: Gerlt, J A]]
-	[[Category: Imker, H J.]]	+	[[Category: Imker, H J]]
	[[Category: Enolase]]		[[Category: Enolase]]
	[[Category: Isomerase]]		[[Category: Isomerase]]
	[[Category: Rubisco-like protein]]		[[Category: Rubisco-like protein]]

OCA at 00:55, 2 October 2014

OCA — Thu, 02 Oct 2014 00:55:15 GMT

←Older revision		Revision as of 00:55, 2 October 2014
Line 1:		Line 1:
-	[[~~Image:~~2oem.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal structure of a rubisco-like protein from Geobacillus kaustophilus liganded with Mg2+ and 2,3-diketohexane 1-phosphate==
		+	<StructureSection load='2oem' size='340' side='right' caption='[[2oem]], [[Resolution\|resolution]] 1.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2oem]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacillus_kaustophilus Geobacillus kaustophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OEM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2OEM FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1AE:(1Z)-2-HYDROXY-3-OXOHEX-1-EN-1-YL+DIHYDROGEN+PHOSPHATE'>1AE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtnW ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1462 Geobacillus kaustophilus])</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=2oem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oem OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2oem RCSB], [http://www.ebi.ac.uk/pdbsum/2oem PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	D-Ribulose 1,5-bisphosphate carboxylase/oxygenase (RuBisCO), the most abundant enzyme, is the paradigm member of the recently recognized mechanistically diverse RuBisCO superfamily. The RuBisCO reaction is initiated by abstraction of the proton from C3 of the d-ribulose 1,5-bisphosphate substrate by a carbamate oxygen of carboxylated Lys 201 (spinach enzyme). Heterofunctional homologues of RuBisCO found in species of Bacilli catalyze the tautomerization ("enolization") of 2,3-diketo-5-methylthiopentane 1-phosphate (DK-MTP 1-P) in the methionine salvage pathway in which 5-methylthio-d-ribose (MTR) derived from 5'-methylthioadenosine is converted to methionine [Ashida, H., Saito, Y., Kojima, C., Kobayashi, K., Ogasawara, N., and Yokota, A. (2003) A functional link between RuBisCO-like protein of Bacillus and photosynthetic RuBisCO, Science 302, 286-290]. The reaction catalyzed by this "enolase" is accomplished by abstraction of a proton from C1 of the DK-MTP 1-P substrate to form the tautomerized product, a conjugated enol. Because the RuBisCO- and "enolase"-catalyzed reactions differ in the regiochemistry of proton abstraction but are expected to share stabilization of an enolate anion intermediate by coordination to an active site Mg2+, we sought to establish structure-function relationships for the "enolase" reaction so that the structural basis for the functional diversity could be established. We determined the stereochemical course of the reaction catalyzed by the "enolases" from Bacillus subtilis and Geobacillus kaustophilus. Using stereospecifically deuterated samples of an alternate substrate derived from d-ribose (5-OH group instead of the 5-methylthio group in MTR) as well as of the natural DK-MTP 1-P substrate, we determined that the "enolase"-catalyzed reaction involves abstraction of the 1-proS proton. We also determined the structure of the activated "enolase" from G. kaustophilus (carboxylated on Lys 173) liganded with Mg2+ and 2,3-diketohexane 1-phosphate, a stable alternate substrate. The stereospecificity of proton abstraction restricts the location of the general base to the N-terminal alpha+beta domain instead of the C-terminal (beta/alpha)8-barrel domain that contains the carboxylated Lys 173. Lys 98 in the N-terminal domain, conserved in all "enolases", is positioned to abstract the 1-proS proton. Consistent with this proposed function, the K98A mutant of the G. kaustophilus "enolase" is unable to catalyze the "enolase" reaction. Thus, we conclude that this functionally divergent member of the RuBisCO superfamily uses the same structural strategy as RuBisCO for stabilizing the enolate anion intermediate, i.e., coordination to an essential Mg2+, but the proton abstraction is catalyzed by a different general base.

-	~~{{STRUCTURE_2oem\| PDB=2oem \| SCENE= }}~~	+	Mechanistic diversity in the RuBisCO superfamily: the "enolase" in the methionine salvage pathway in Geobacillus kaustophilus.,Imker HJ, Fedorov AA, Fedorov EV, Almo SC, Gerlt JA Biochemistry. 2007 Apr 3;46(13):4077-89. Epub 2007 Mar 13. PMID:17352497<ref>PMID:17352497</ref>

-	~~===Crystal structure of a rubisco-like protein from Geobacillus kaustophilus liganded with Mg2+ and 2~~,~~3-diketohexane 1-phosphate===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17352497}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2oem]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Geobacillus_kaustophilus Geobacillus kaustophilus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2OEM OCA].~~	+

	==See Also==		==See Also==
	*[[Enolase\|Enolase]]		*[[Enolase\|Enolase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:017352497<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Geobacillus kaustophilus]]		[[Category: Geobacillus kaustophilus]]
	[[Category: Almo, S C.]]		[[Category: Almo, S C.]]

OCA at 20:11, 20 October 2012

OCA — Sat, 20 Oct 2012 20:11:23 GMT

←Older revision		Revision as of 20:11, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2oem]] is a 2 chain structure ~~of [[Enolase]]~~ with sequence from [http://en.wikipedia.org/wiki/Geobacillus_kaustophilus Geobacillus kaustophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OEM OCA].	+	[[2oem]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacillus_kaustophilus Geobacillus kaustophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OEM OCA].

	==See Also==		==See Also==

OCA: Protected "2oem" [edit=sysop:move=sysop]

OCA — Fri, 27 Jul 2012 09:41:06 GMT

Protected "2oem" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:41, 27 July 2012

OCA at 09:41, 27 July 2012

OCA — Fri, 27 Jul 2012 09:41:04 GMT

←Older revision		Revision as of 09:41, 27 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2oem.png\|left\|200px]]		[[Image:2oem.png\|left\|200px]]

-	<!--
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	{{STRUCTURE_2oem\| PDB=2oem \| SCENE= }}		{{STRUCTURE_2oem\| PDB=2oem \| SCENE= }}

	===Crystal structure of a rubisco-like protein from Geobacillus kaustophilus liganded with Mg2+ and 2,3-diketohexane 1-phosphate===		===Crystal structure of a rubisco-like protein from Geobacillus kaustophilus liganded with Mg2+ and 2,3-diketohexane 1-phosphate===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17352497}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17352497 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_17352497}}		{{ABSTRACT_PUBMED_17352497}}

	==About this Structure==		==About this Structure==
-	~~2OEM is a~~ [[~~Single protein~~]] structure of sequence from [http://en.wikipedia.org/wiki/Geobacillus_kaustophilus Geobacillus kaustophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OEM OCA].	+	[[2oem]] is a 2 chain structure of [[Enolase]] with sequence from [http://en.wikipedia.org/wiki/Geobacillus_kaustophilus Geobacillus kaustophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OEM OCA].
		+
		+	==See Also==
		+	*[[Enolase\|Enolase]]

	==Reference==		==Reference==
-	~~Mechanistic diversity in the RuBisCO superfamily: the~~ "~~enolase~~" ~~in the methionine salvage pathway in Geobacillus kaustophilus., Imker HJ, Fedorov AA, Fedorov EV, Almo SC, Gerlt JA, Biochemistry. 2007 Apr 3;46(13):4077-89. Epub 2007 Mar 13.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/17352497 17352497]~~	+	<ref group="xtra">PMID:017352497</ref><references group="xtra"/>
	[[Category: Geobacillus kaustophilus]]		[[Category: Geobacillus kaustophilus]]
-	[[Category: Single protein]]
	[[Category: Almo, S C.]]		[[Category: Almo, S C.]]
	[[Category: Fedorov, A A.]]		[[Category: Fedorov, A A.]]
Line 34:		Line 24:
	[[Category: Isomerase]]		[[Category: Isomerase]]
	[[Category: Rubisco-like protein]]		[[Category: Rubisco-like protein]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 09:42:18 2008''