6g3z - Revision history

OCA at 06:18, 11 July 2018

OCA — Wed, 11 Jul 2018 06:18:50 GMT

←Older revision		Revision as of 06:18, 11 July 2018
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	<StructureSection load='6g3z' size='340' side='right' caption='[[6g3z]], [[Resolution\|resolution]] 2.35Å' scene=''>		<StructureSection load='6g3z' size='340' side='right' caption='[[6g3z]], [[Resolution\|resolution]] 2.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6g3z]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6G3Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6G3Z FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6g3z]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/'saccharolobus_solfataricus' 'saccharolobus solfataricus']. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6G3Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6G3Z FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ELE:2-keto+3+deoxy+6+phospho+gluconate'>ELE</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ELE:2-keto+3+deoxy+6+phospho+gluconate'>ELE</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4uxd\|4uxd]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4uxd\|4uxd]]</td></tr>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Saccharolobus solfataricus]]
	[[Category: 2-dehydro-3-deoxy-phosphogluconate/2-dehydro-3-deoxy-6-phosphogalactonate aldolase]]		[[Category: 2-dehydro-3-deoxy-phosphogluconate/2-dehydro-3-deoxy-6-phosphogalactonate aldolase]]
	[[Category: Crennell, S J]]		[[Category: Crennell, S J]]

OCA at 05:40, 27 June 2018

OCA — Wed, 27 Jun 2018 05:40:47 GMT

←Older revision		Revision as of 05:40, 27 June 2018
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-	'''Unreleased structure'''

-	~~The entry~~ 6g3z is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Sulfolobus sulfataricus 2-keto-3-deoxygluconate (KDG) aldolase complex with D-KDPG==
		+	<StructureSection load='6g3z' size='340' side='right' caption='[[6g3z]], [[Resolution\|resolution]] 2.35Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6g3z]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6G3Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6G3Z FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ELE:2-keto+3+deoxy+6+phospho+gluconate'>ELE</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4uxd\|4uxd]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/2-dehydro-3-deoxy-phosphogluconate/2-dehydro-3-deoxy-6-phosphogalactonate_aldolase 2-dehydro-3-deoxy-phosphogluconate/2-dehydro-3-deoxy-6-phosphogalactonate aldolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.55 4.1.2.55] </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=6g3z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6g3z OCA], [http://pdbe.org/6g3z PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6g3z RCSB], [http://www.ebi.ac.uk/pdbsum/6g3z PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6g3z ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/KDGA_SULSF KDGA_SULSF]] Involved in the degradation of glucose and galactose via the Entner-Doudoroff pathway. Catalyzes the reversible cleavage of 2-keto-3-deoxy-6-phosphogluconate (KDPG) and 2-keto-3-deoxygluconate (KDG) forming pyruvate and glyceraldehyde 3-phosphate or glyceraldehyde, respectively. It is also able to catalyze the reversible cleavage of 2-keto-3-deoxy-6-phosphogalactonate (KDPGal) and 2-keto-3-deoxygalactonate (KDGal). It is equally active with both D- and L-glyceraldehyde.<ref>PMID:10527934</ref> <ref>PMID:12824170</ref> <ref>PMID:16330030</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The thermoacidophilic archaea Picrophilus torridus and Sulfolobus solfataricus catabolize glucose via a nonphosphorylative Entner-Doudoroff pathway and a branched Entner-Doudoroff pathway, respectively. Key enzymes for these Entner-Doudoroff pathways are the aldolases, 2-keto-3-deoxygluconate aldolase (KDG-aldolase) and 2-keto-3-deoxy-6-phosphogluconate aldolase [KD(P)G-aldolase]. KDG-aldolase from P. torridus (Pt-KDG-aldolase) is highly specific for the nonphosphorylated substrate, 2-keto-3-deoxygluconate (KDG), whereas KD(P)G-aldolase from S. solfataricus [Ss-KD(P)G-aldolase] is an enzyme that catalyzes the cleavage of both KDG and 2-keto-3-deoxy-6-phosphogluconate (KDPG), with a preference for KDPG. The structural basis for the high specificity of Pt-KDG-aldolase for KDG as compared to the more promiscuous Ss-KD(P)G-aldolase has not been analyzed before. In this work, we report the elucidation of the structure of Ss-KD(P)G-aldolase in complex with KDPG at 2.35 A and that of KDG-aldolase from P. torridus at 2.50 A resolution. By superimposition of the active sites of the two enzymes, and subsequent site-directed mutagenesis studies, a network of four amino acids, namely, Arg106, Tyr132, Arg237, and Ser241, was identified in Ss-KD(P)G-aldolase that interact with the negatively charged phosphate group of KDPG, thereby increasing the affinity of the enzyme for KDPG. This KDPG-binding network is absent in Pt-KDG-aldolase, which explains the low catalytic efficiency of KDPG cleavage.

-	~~Authors~~: ~~Crennell~~, S.J.	+	Insights into the Substrate Specificity of Archaeal Entner-Doudoroff Aldolases: The Structures of Picrophilus torridus 2-Keto-3-deoxygluconate Aldolase and Sulfolobus solfataricus 2-Keto-3-deoxy-6-phosphogluconate Aldolase in Complex with 2-Keto-3-deoxy-6-phosphogluconate.,Zaitsev V, Johnsen U, Reher M, Ortjohann M, Taylor GL, Danson MJ, Schonheit P, Crennell SJ Biochemistry. 2018 Jun 13. doi: 10.1021/acs.biochem.8b00535. PMID:29812914<ref>PMID:29812914</ref>

-	~~Description~~: ~~Sulfolobus sulfataricus~~ 2-keto-3-deoxygluconate ~~(KDG)~~ aldolase ~~complex with D-KDPG~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: ~~Crennell, S.J~~]]	+	<div class="pdbe-citations 6g3z" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: 2-dehydro-3-deoxy-phosphogluconate/2-dehydro-3-deoxy-6-phosphogalactonate aldolase]]
		+	[[Category: Crennell, S J]]
		+	[[Category: 2-dehydro-3-deoxy-6-phospho-d-gluconate]]
		+	[[Category: 2-keto-3-deoxygluconate aldolase]]
		+	[[Category: Lyase]]
		+	[[Category: Sulfolobus sulfataricus]]

OCA at 04:16, 25 April 2018

OCA — Wed, 25 Apr 2018 04:16:22 GMT

←Older revision		Revision as of 04:16, 25 April 2018
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6g3z is ON HOLD	+	The entry 6g3z is ON HOLD until Paper Publication

	Authors: Crennell, S.J.		Authors: Crennell, S.J.

OCA: Protected "6g3z" [edit=sysop:move=sysop]

OCA — Wed, 04 Apr 2018 04:51:15 GMT

Protected "6g3z" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:51, 4 April 2018

OCA: New page: '''Unreleased structure''' The entry 6g3z is ON HOLD Authors: Crennell, S.J. Description: Sulfolobus sulfataricus 2-keto-3-deoxygluconate (KDG) aldolase complex with D-KDPG [[Category:...

OCA — Wed, 04 Apr 2018 04:51:13 GMT

New page: '''Unreleased structure''' The entry 6g3z is ON HOLD Authors: Crennell, S.J. Description: Sulfolobus sulfataricus 2-keto-3-deoxygluconate (KDG) aldolase complex with D-KDPG [[Category:...

New page

'''Unreleased structure'''

The entry 6g3z is ON HOLD

Authors: Crennell, S.J.

Description: Sulfolobus sulfataricus 2-keto-3-deoxygluconate (KDG) aldolase complex with D-KDPG
[[Category: Unreleased Structures]]
[[Category: Crennell, S.J]]