6jd2 - Revision history

OCA at 10:06, 22 November 2023

OCA — Wed, 22 Nov 2023 10:06:44 GMT

←Older revision		Revision as of 10:06, 22 November 2023
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	<StructureSection load='6jd2' size='340' side='right'caption='[[6jd2]], [[Resolution\|resolution]] 2.53Å' scene=''>		<StructureSection load='6jd2' size='340' side='right'caption='[[6jd2]], [[Resolution\|resolution]] 2.53Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6jd2]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JD2 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6JD2 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6jd2]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharolobus_solfataricus_P2 Saccharolobus solfataricus P2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JD2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6JD2 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=BME:BETA~~-~~MERCAPTOETHANOL'>BME</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]] 2.53Å</td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[http:~~/~~/en.wikipedia.org/wiki/Ketol-acid_reductoisomerase Ketol-acid reductoisomerase]~~, ~~with EC number [http~~:~~//www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.86 1.1.1.86]~~ </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</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'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6jd2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jd2 OCA], [~~http~~://pdbe.org/6jd2 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6jd2 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6jd2 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6jd2 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=6jd2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jd2 OCA], [https://pdbe.org/6jd2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6jd2 RCSB], [https://www.ebi.ac.uk/pdbsum/6jd2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6jd2 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/ILVC2_SACS2 ILVC2_SACS2]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6jd2" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6jd2" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Ketol-acid reductoisomerase 3D structures\|Ketol-acid reductoisomerase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Ketol-acid reductoisomerase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chang~~, Y C~~]]	+	[[Category: Saccharolobus solfataricus P2]]
-	[[Category: Chen~~, C Y~~]]	+	[[Category: Chang YC]]
-	[[Category: Hsieh~~, D L~~]]	+	[[Category: Chen CY]]
-	[[Category: Huang~~, C H~~]]	+	[[Category: Hsieh DL]]
-	[[Category: Ko~~, T P~~]]	+	[[Category: Huang CH]]
-	[[Category: Lin~~, B L~~]]	+	[[Category: Ko TP]]
-	[[Category: Lin~~, K F~~]]	+	[[Category: Lin BL]]
-	[[Category: Tsai~~, M D]]~~	+	[[Category: Lin KF]]
-	~~[[Category: Bi-specific]]~~	+	[[Category: Tsai MD]]
-	~~[[Category: Dodecamer]]~~	+
-	~~[[Category: Isomerase]]~~	+
-	~~[[Category: Knotted protein]]~~	+
-	~~[[Category: Magnesium-dependent]]~~	+
-	~~[[Category: Reductoisomerase]]~~	+
-	~~[[Category: Thermostable~~]]	+

OCA at 16:33, 14 August 2019

OCA — Wed, 14 Aug 2019 16:33:35 GMT

←Older revision		Revision as of 16:33, 14 August 2019
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-	'''Unreleased structure'''

-	~~The entry~~ 6jd2 is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of Sulfolobus solfataricus ketol-acid reductoisomerase (Sso-KARI) in complex with Mg2+ at pH8.5==
		+	<StructureSection load='6jd2' size='340' side='right'caption='[[6jd2]], [[Resolution\|resolution]] 2.53Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6jd2]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JD2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6JD2 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ketol-acid_reductoisomerase Ketol-acid reductoisomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.86 1.1.1.86] </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=6jd2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jd2 OCA], [http://pdbe.org/6jd2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6jd2 RCSB], [http://www.ebi.ac.uk/pdbsum/6jd2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6jd2 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	While cryo-EM is revolutionizing structural biology, its impact on enzymology is yet to be fully demonstrated. The ketol-acid reductoisomerase (KARI) catalyzes conversion of (2 S)-acetolactate or (2 S)-aceto-2-hydroxybutyrate to 2,3-dihydroxy-3-alkylbutyrate. We found that KARI from archaea Sulfolobus solfataricus (Sso-KARI) is unusual in being a dodecamer, bispecific to NADH and NADPH, and losing activity above pH 7.8. While crystals were obtainable only at pH 8.5, cryo-EM structures were solved at pH 7.5 and 8.5 for Sso-KARI:2Mg(2+). The results showed that the distances of the two catalytic Mg(2+) ions are lengthened in both structures at pH 8.5. We next solved cryo-EM structures of two Sso-KARI complexes, with NADH+inhibitor and NADPH+inhibitor at pH 7.5, which indicate that the bispecificity can be attributed to a unique asparagine at the cofactor binding loop. Unexpectedly, Sso-KARI also differs from other KARI enzymes in lacking "induced-fit", reflecting structural rigidity. Thus, cryo-EM is powerful for structural and mechanistic enzymology.

-	~~Authors~~:	+	Use of Cryo-EM To Uncover Structural Bases of pH Effect and Cofactor Bispecificity of Ketol-Acid Reductoisomerase.,Chen CY, Chang YC, Lin BL, Lin KF, Huang CH, Hsieh DL, Ko TP, Tsai MD J Am Chem Soc. 2019 Apr 2. doi: 10.1021/jacs.9b01354. PMID:30921515<ref>PMID:30921515</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6jd2" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Ketol-acid reductoisomerase]]
		+	[[Category: Large Structures]]
		+	[[Category: Chang, Y C]]
		+	[[Category: Chen, C Y]]
		+	[[Category: Hsieh, D L]]
		+	[[Category: Huang, C H]]
		+	[[Category: Ko, T P]]
		+	[[Category: Lin, B L]]
		+	[[Category: Lin, K F]]
		+	[[Category: Tsai, M D]]
		+	[[Category: Bi-specific]]
		+	[[Category: Dodecamer]]
		+	[[Category: Isomerase]]
		+	[[Category: Knotted protein]]
		+	[[Category: Magnesium-dependent]]
		+	[[Category: Reductoisomerase]]
		+	[[Category: Thermostable]]

OCA at 04:23, 3 April 2019

OCA — Wed, 03 Apr 2019 04:23:28 GMT

←Older revision		Revision as of 04:23, 3 April 2019
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6jd2 is ON HOLD	+	The entry 6jd2 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6jd2" [edit=sysop:move=sysop]

OCA — Wed, 13 Feb 2019 07:23:50 GMT

Protected "6jd2" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:23, 13 February 2019

OCA: New page: '''Unreleased structure''' The entry 6jd2 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 13 Feb 2019 07:23:49 GMT

New page: '''Unreleased structure''' The entry 6jd2 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6jd2 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]