4nzs - Revision history

OCA at 14:52, 8 November 2023

OCA — Wed, 08 Nov 2023 14:52:09 GMT

←Older revision		Revision as of 14:52, 8 November 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4nzs]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Cupriavidus_necator_H16 Cupriavidus necator H16]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NZS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4NZS FirstGlance]. <br>		<table><tr><td colspan='2'>[[4nzs]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Cupriavidus_necator_H16 Cupriavidus necator H16]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NZS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4NZS FirstGlance]. <br>
-	</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=4nzs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nzs OCA], [https://pdbe.org/4nzs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4nzs RCSB], [https://www.ebi.ac.uk/pdbsum/4nzs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4nzs ProSAT]</span></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]] 2.29Å</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=4nzs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nzs OCA], [https://pdbe.org/4nzs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4nzs RCSB], [https://www.ebi.ac.uk/pdbsum/4nzs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4nzs ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 08:48, 18 January 2023

OCA — Wed, 18 Jan 2023 08:48:45 GMT

←Older revision		Revision as of 08:48, 18 January 2023
Line 1:		Line 1:

	==Crystal structure of beta-ketothiolase BktB B from Ralstonia eutropha H16==		==Crystal structure of beta-ketothiolase BktB B from Ralstonia eutropha H16==
-	<StructureSection load='4nzs' size='340' side='right' caption='[[4nzs]], [[Resolution\|resolution]] 2.29Å' scene=''>	+	<StructureSection load='4nzs' size='340' side='right'caption='[[4nzs]], [[Resolution\|resolution]] 2.29Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4nzs]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Alcaligenes_eutropha_h16 Alcaligenes eutropha h16~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NZS OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4NZS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4nzs]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Cupriavidus_necator_H16 Cupriavidus necator H16]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NZS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4NZS FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">bktB, H16_A1445 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=381666 Alcaligenes eutropha H16])</td></tr>	+	</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=4nzs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nzs OCA], [https://pdbe.org/4nzs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4nzs RCSB], [https://www.ebi.ac.uk/pdbsum/4nzs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4nzs ProSAT]</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=4nzs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nzs OCA], [~~http~~://pdbe.org/4nzs PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4nzs RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4nzs PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4nzs ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/BKTB_CUPNH BKTB_CUPNH]] Required for efficient production of poly(beta-hydroxybutyrate-co-beta-hydroxyvalerate) (PHBV). Catalyzes the condensation of acetyl-CoA and propionyl-CoA to form beta-ketovaleryl-CoA, and the condensation of two acetyl-CoA molecules to form acetoacetyl-CoA.<ref>PMID:9555876</ref>	+	[https://www.uniprot.org/uniprot/BKTB_CUPNH BKTB_CUPNH] Required for efficient production of poly(beta-hydroxybutyrate-co-beta-hydroxyvalerate) (PHBV). Catalyzes the condensation of acetyl-CoA and propionyl-CoA to form beta-ketovaleryl-CoA, and the condensation of two acetyl-CoA molecules to form acetoacetyl-CoA.<ref>PMID:9555876</ref>
	<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 4nzs" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4nzs" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Thiolase 3D structures\|Thiolase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Alcaligenes eutropha h16~~]]	+	[[Category: Cupriavidus necator H16]]
-	[[Category: ~~Kim, E J~~]]	+	[[Category: Large Structures]]
-	[[Category: Kim~~, K J~~]]	+	[[Category: Kim EJ]]
-	[[Category: Kim~~, S~~]]	+	[[Category: Kim KJ]]
-	[[Category: ~~Son, H~~]]	+	[[Category: Kim S]]
-	[[Category: ~~Thiolase superfamily]]~~	+	[[Category: Son H]]
-	~~[[Category: Transferase~~]]	+

OCA at 08:19, 22 November 2017

OCA — Wed, 22 Nov 2017 08:19:42 GMT

←Older revision		Revision as of 08:19, 22 November 2017
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	<StructureSection load='4nzs' size='340' side='right' caption='[[4nzs]], [[Resolution\|resolution]] 2.29Å' scene=''>		<StructureSection load='4nzs' size='340' side='right' caption='[[4nzs]], [[Resolution\|resolution]] 2.29Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4nzs]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NZS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4NZS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4nzs]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Alcaligenes_eutropha_h16 Alcaligenes eutropha h16]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NZS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4NZS FirstGlance]. <br>
-	</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=4nzs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nzs OCA], [http://pdbe.org/4nzs PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4nzs RCSB], [http://www.ebi.ac.uk/pdbsum/4nzs PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4nzs ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">bktB, H16_A1445 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=381666 Alcaligenes eutropha H16])</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=4nzs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nzs OCA], [http://pdbe.org/4nzs PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4nzs RCSB], [http://www.ebi.ac.uk/pdbsum/4nzs PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4nzs ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Alcaligenes eutropha h16]]
	[[Category: Kim, E J]]		[[Category: Kim, E J]]
	[[Category: Kim, K J]]		[[Category: Kim, K J]]

OCA at 10:26, 5 August 2016

OCA — Fri, 05 Aug 2016 10:26:04 GMT

←Older revision		Revision as of 10:26, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of beta-ketothiolase BktB B from Ralstonia eutropha H16==		==Crystal structure of beta-ketothiolase BktB B from Ralstonia eutropha H16==
	<StructureSection load='4nzs' size='340' side='right' caption='[[4nzs]], [[Resolution\|resolution]] 2.29Å' scene=''>		<StructureSection load='4nzs' size='340' side='right' caption='[[4nzs]], [[Resolution\|resolution]] 2.29Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4nzs]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NZS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4NZS FirstGlance]. <br>		<table><tr><td colspan='2'>[[4nzs]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NZS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4NZS FirstGlance]. <br>
-	</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=4nzs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nzs OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4nzs RCSB], [http://www.ebi.ac.uk/pdbsum/4nzs PDBsum]</span></td></tr>	+	</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=4nzs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nzs OCA], [http://pdbe.org/4nzs PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4nzs RCSB], [http://www.ebi.ac.uk/pdbsum/4nzs PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4nzs ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 15:		Line 16:
	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 4nzs" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 01:35, 25 December 2014

OCA — Thu, 25 Dec 2014 01:35:58 GMT

←Older revision		Revision as of 01:35, 25 December 2014
Line 5:		Line 5:
	</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=4nzs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nzs OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4nzs RCSB], [http://www.ebi.ac.uk/pdbsum/4nzs PDBsum]</span></td></tr>		</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=4nzs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nzs OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4nzs RCSB], [http://www.ebi.ac.uk/pdbsum/4nzs PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/BKTB_CUPNH BKTB_CUPNH]] Required for efficient production of poly(beta-hydroxybutyrate-co-beta-hydroxyvalerate) (PHBV). Catalyzes the condensation of acetyl-CoA and propionyl-CoA to form beta-ketovaleryl-CoA, and the condensation of two acetyl-CoA molecules to form acetoacetyl-CoA.<ref>PMID:9555876</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 12:43, 19 November 2014

OCA — Wed, 19 Nov 2014 12:43:30 GMT

←Older revision		Revision as of 12:43, 19 November 2014
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Crystal structure of beta-ketothiolase BktB B from Ralstonia eutropha H16==
		+	<StructureSection load='4nzs' size='340' side='right' caption='[[4nzs]], [[Resolution\|resolution]] 2.29Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4nzs]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NZS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4NZS FirstGlance]. <br>
		+	</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=4nzs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nzs OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4nzs RCSB], [http://www.ebi.ac.uk/pdbsum/4nzs PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	ReBktB is a beta-keto thiolase from Ralstonia eutropha H16 that catalyzes condensation reactions between acetyl-CoA with acyl-CoA molecules that contains different numbers of carbon atoms, such as acetyl-CoA, propionyl-CoA, and butyryl-CoA, to produce valuable bioproducts, such as polyhydroxybutyrate, polyhydroxybutyrate-hydroxyvalerate, and hexanoate. We solved a crystal structure of ReBktB at 2.3A, and the overall structure has a similar fold to that of type II biosynthetic thiolases, such as PhbA from Zoogloea ramigera (ZrPhbA). The superposition of this structure with that of ZrPhbA complexed with CoA revealed the residues that comprise the catalytic and substrate binding sites of ReBktB. The catalytic site of ReBktB contains three conserved residues, Cys90, His350, and Cys380, which may function as a covalent nucleophile, a general base, and second nucleophile, respectively. For substrate binding, ReBktB stabilized the ADP moiety of CoA in a distinct way compared to ZrPhbA with His219, Arg221, and Asp228 residues, whereas the stabilization of beta-mercaptoethyamine and pantothenic acid moieties of CoA was quite similar between these two enzymes. Kinetic study of ReBktB revealed that K(m), V(max), and K(cat) values of 11.58 muM, 1.5 mumol/min, and 102.18 s(-1), respectively, and the catalytic and substrate binding sites of ReBktB were further confirmed by site-directed mutagenesis experiments.

-	~~The entry 4nzs is ON HOLD until Paper Publication~~	+	Crystal structure and biochemical characterization of beta-keto thiolase B from polyhydroxyalkanoate-producing bacterium Ralstonia eutropha H16.,Kim EJ, Son HF, Kim S, Ahn JW, Kim KJ Biochem Biophys Res Commun. 2014 Feb 14;444(3):365-9. doi:, 10.1016/j.bbrc.2014.01.055. Epub 2014 Jan 22. PMID:24462871<ref>PMID:24462871</ref>

-	~~Authors~~: Kim, E.J, ~~Son, H,~~ Kim, S., ~~Kim, K.J.~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~Crystal structure of beta-ketothiolase BktB B from Ralstonia eutropha H16~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Kim, E J]]
		+	[[Category: Kim, K J]]
		+	[[Category: Kim, S]]
		+	[[Category: Son, H]]
		+	[[Category: Thiolase superfamily]]
		+	[[Category: Transferase]]

OCA at 09:15, 22 October 2014

OCA — Wed, 22 Oct 2014 09:15:23 GMT

←Older revision		Revision as of 09:15, 22 October 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4nzs is ON HOLD	+	The entry 4nzs is ON HOLD until Paper Publication

	Authors: Kim, E.J, Son, H, Kim, S., Kim, K.J.		Authors: Kim, E.J, Son, H, Kim, S., Kim, K.J.

	Description: Crystal structure of beta-ketothiolase BktB B from Ralstonia eutropha H16		Description: Crystal structure of beta-ketothiolase BktB B from Ralstonia eutropha H16

OCA at 09:28, 25 December 2013

OCA — Wed, 25 Dec 2013 09:28:17 GMT

←Older revision		Revision as of 09:28, 25 December 2013
Line 3:		Line 3:
	The entry 4nzs is ON HOLD		The entry 4nzs is ON HOLD

-	Authors: Kim, E.-J, Son, H, Kim, S., Kim, K.-J.	+	Authors: Kim, E.J, Son, H, Kim, S., Kim, K.J.

	Description: Crystal structure of beta-ketothiolase BktB B from Ralstonia eutropha H16		Description: Crystal structure of beta-ketothiolase BktB B from Ralstonia eutropha H16

OCA: Protected "4nzs" [edit=sysop:move=sysop]

OCA — Wed, 18 Dec 2013 09:29:35 GMT

Protected "4nzs" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:29, 18 December 2013

OCA: New page: '''Unreleased structure''' The entry 4nzs is ON HOLD Authors: Kim, E.-J, Son, H, Kim, S., Kim, K.-J. Description: Crystal structure of beta-ketothiolase BktB B from Ralstonia eutropha ...

OCA — Wed, 18 Dec 2013 09:29:33 GMT

New page: '''Unreleased structure''' The entry 4nzs is ON HOLD Authors: Kim, E.-J, Son, H, Kim, S., Kim, K.-J. Description: Crystal structure of beta-ketothiolase BktB B from Ralstonia eutropha ...

New page

'''Unreleased structure'''

The entry 4nzs is ON HOLD

Authors: Kim, E.-J, Son, H, Kim, S., Kim, K.-J.

Description: Crystal structure of beta-ketothiolase BktB B from Ralstonia eutropha H16