6pbj - Revision history

OCA at 07:26, 11 October 2023

OCA — Wed, 11 Oct 2023 07:26:30 GMT

←Older revision		Revision as of 07:26, 11 October 2023
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	<StructureSection load='6pbj' size='340' side='right'caption='[[6pbj]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='6pbj' size='340' side='right'caption='[[6pbj]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6pbj]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_tuberculosis"_(zopf_1883)_klein_1884 "bacillus~~ tuberculosis~~" (zopf 1883) klein 1884~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PBJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6PBJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6pbj]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PBJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6PBJ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.9Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">aroG_1, ERS027644_03091, ERS031537_02142, ERS124361_01166 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1773 "Bacillus tuberculosis" (Zopf 1883) Klein 1884])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-deoxy-7-phosphoheptulonate_synthase 3-deoxy-7-phosphoheptulonate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.54 2.5.1.54] </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=6pbj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pbj OCA], [https://pdbe.org/6pbj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6pbj RCSB], [https://www.ebi.ac.uk/pdbsum/6pbj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6pbj ProSAT]</span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6pbj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pbj OCA], [~~http~~://pdbe.org/6pbj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6pbj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6pbj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6pbj ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/AROG_MYCTU AROG_MYCTU] Catalyzes an aldol-like condensation reaction between phosphoenolpyruvate (PEP) and D-erythrose 4-phosphate (E4P) to generate 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAH7P) and inorganic phosphate.<ref>PMID:16288916</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: 3-deoxy-7-phosphoheptulonate synthase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Blackmore, N J~~]]	+	[[Category: Mycobacterium tuberculosis]]
-	[[Category: ~~Fan, Y~~]]	+	[[Category: Blackmore NJ]]
-	[[Category: ~~Jiao, W~~]]	+	[[Category: Fan Y]]
-	[[Category: ~~Parker, E J~~]]	+	[[Category: Jiao W]]
-	[[Category: ~~Allostery]]~~	+	[[Category: Parker EJ]]
-	~~[[Category: Dah7p]]~~	+
-	~~[[Category: Shipmate pathway]]~~	+
-	~~[[Category: Tim barrel]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 08:33, 21 October 2020

OCA — Wed, 21 Oct 2020 08:33:40 GMT

←Older revision		Revision as of 08:33, 21 October 2020
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	<StructureSection load='6pbj' size='340' side='right'caption='[[6pbj]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='6pbj' size='340' side='right'caption='[[6pbj]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6pbj]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PBJ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6PBJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6pbj]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_tuberculosis"_(zopf_1883)_klein_1884 "bacillus tuberculosis" (zopf 1883) klein 1884]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PBJ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6PBJ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">aroG_1, ERS027644_03091, ERS031537_02142, ERS124361_01166 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1773 "Bacillus tuberculosis" (Zopf 1883) Klein 1884])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-deoxy-7-phosphoheptulonate_synthase 3-deoxy-7-phosphoheptulonate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.54 2.5.1.54] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-deoxy-7-phosphoheptulonate_synthase 3-deoxy-7-phosphoheptulonate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.54 2.5.1.54] </span></td></tr>
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6pbj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pbj OCA], [http://pdbe.org/6pbj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6pbj RCSB], [http://www.ebi.ac.uk/pdbsum/6pbj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6pbj ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6pbj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pbj OCA], [http://pdbe.org/6pbj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6pbj RCSB], [http://www.ebi.ac.uk/pdbsum/6pbj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6pbj ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Allostery exploits the conformational dynamics of enzymes by triggering a shift in population ensembles toward functionally distinct conformational or dynamic states. Allostery extensively regulates the activities of key enzymes within biosynthetic pathways to meet metabolic demand for their end products. Here, we have examined a critical enzyme, 3-deoxy-d-arabino-heptulosonate 7-phosphate synthase (DAH7PS), at the gateway to aromatic amino acid biosynthesis in Mycobacterium tuberculosis, which shows extremely complex dynamic allostery: three distinct aromatic amino acids jointly communicate occupancy to the active site via subtle changes in dynamics, enabling exquisite fine-tuning of delivery of these essential metabolites. Furthermore, this allosteric mechanism is co-opted by pathway branchpoint enzyme chorismate mutase upon complex formation. In this study, using statistical coupling analysis, site-directed mutagenesis, isothermal calorimetry, small-angle X-ray scattering, and X-ray crystallography analyses, we have pinpointed a critical node within the complex dynamic communication network responsible for this sophisticated allosteric machinery. Through a facile Gly to Pro substitution, we have altered backbone dynamics, completely severing the allosteric signal yet remarkably, generating a nonallosteric enzyme that retains full catalytic activity. We also identified a second residue of prime importance to the inter-enzyme communication with chorismate mutase. Our results reveal that highly complex dynamic allostery is surprisingly vulnerable and provide further insights into the intimate link between catalysis and allostery.
		+
		+	A single amino acid substitution uncouples catalysis and allostery in an essential biosynthetic enzyme in Mycobacterium tuberculosis.,Jiao W, Fan Y, Blackmore NJ, Parker EJ J Biol Chem. 2020 May 8;295(19):6252-6262. doi: 10.1074/jbc.RA120.012605. Epub, 2020 Mar 26. PMID:32217694<ref>PMID:32217694</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6pbj" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[DAHP synthase 3D structures\|DAHP synthase 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 06:51, 8 April 2020

OCA — Wed, 08 Apr 2020 06:51:22 GMT

←Older revision		Revision as of 06:51, 8 April 2020
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-	'''Unreleased structure'''

-	The ~~entry~~ 6pbj is ~~ON HOLD until Paper Publication~~	+	==The structure of 3-deoxy-d-arabino-heptulosonate 7-phosphate synthase with Gly190Pro mutation==
-		+	<StructureSection load='6pbj' size='340' side='right'caption='[[6pbj]], [[Resolution\|resolution]] 1.90Å' scene=''>
-	~~Authors~~: ~~Jiao~~, W., ~~Fan~~, Y., ~~Blackmore~~, N.J., ~~Parker, E~~.J.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6pbj]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PBJ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6PBJ FirstGlance]. <br>
-	~~Description~~: ~~The structure of~~ 3-deoxy-~~d-arabino-heptulosonate~~ 7-~~phosphate~~ synthase ~~with Gly190Pro mutation~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-deoxy-7-phosphoheptulonate_synthase 3-deoxy-7-phosphoheptulonate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.54 2.5.1.54] </span></td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6pbj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pbj OCA], [http://pdbe.org/6pbj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6pbj RCSB], [http://www.ebi.ac.uk/pdbsum/6pbj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6pbj ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: 3-deoxy-7-phosphoheptulonate synthase]]
		+	[[Category: Large Structures]]
		+	[[Category: Blackmore, N J]]
	[[Category: Fan, Y]]		[[Category: Fan, Y]]
	[[Category: Jiao, W]]		[[Category: Jiao, W]]
-	[[Category: Parker, E.J]]	+	[[Category: Parker, E J]]
-	[[Category: ~~Blackmore, N.J~~]]	+	[[Category: Allostery]]
		+	[[Category: Dah7p]]
		+	[[Category: Shipmate pathway]]
		+	[[Category: Tim barrel]]
		+	[[Category: Transferase]]

OCA at 08:19, 27 March 2020

OCA — Fri, 27 Mar 2020 08:19:24 GMT

←Older revision		Revision as of 08:19, 27 March 2020
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	The entry 6pbj is ON HOLD until Paper Publication		The entry 6pbj is ON HOLD until Paper Publication

-	Authors: Jiao, W., Fan, E., Blackmore, N.J., Parker, E.J.	+	Authors: Jiao, W., Fan, Y., Blackmore, N.J., Parker, E.J.

	Description: The structure of 3-deoxy-d-arabino-heptulosonate 7-phosphate synthase with Gly190Pro mutation		Description: The structure of 3-deoxy-d-arabino-heptulosonate 7-phosphate synthase with Gly190Pro mutation
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Fan, E]]	+	[[Category: Fan, Y]]
	[[Category: Jiao, W]]		[[Category: Jiao, W]]
	[[Category: Parker, E.J]]		[[Category: Parker, E.J]]
	[[Category: Blackmore, N.J]]		[[Category: Blackmore, N.J]]

OCA at 05:13, 19 February 2020

OCA — Wed, 19 Feb 2020 05:13:38 GMT

←Older revision		Revision as of 05:13, 19 February 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Jiao, W., Fan, E., Blackmore, N.J., Parker, E.J.		Authors: Jiao, W., Fan, E., Blackmore, N.J., Parker, E.J.

OCA at 02:36, 13 February 2020

OCA — Thu, 13 Feb 2020 02:36:55 GMT

←Older revision		Revision as of 02:36, 13 February 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6pbj is ON HOLD ~~until Paper Publication~~	+	The entry 6pbj is ON HOLD

	Authors: Jiao, W., Fan, E., Blackmore, N.J., Parker, E.J.		Authors: Jiao, W., Fan, E., Blackmore, N.J., Parker, E.J.

OCA at 05:14, 26 June 2019

OCA — Wed, 26 Jun 2019 05:14:00 GMT

←Older revision		Revision as of 05:14, 26 June 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Jiao, W., Fan, E., Blackmore, N.J., Parker, E.J.		Authors: Jiao, W., Fan, E., Blackmore, N.J., Parker, E.J.

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

OCA — Wed, 19 Jun 2019 04:26:34 GMT

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

←Older revision

Revision as of 04:26, 19 June 2019

OCA: New page: '''Unreleased structure''' The entry 6pbj is ON HOLD Authors: Jiao, W., Fan, E., Blackmore, N.J., Parker, E.J. Description: The structure of 3-deoxy-d-arabino-heptulosonate 7-phosphate...

OCA — Wed, 19 Jun 2019 04:26:32 GMT

New page: '''Unreleased structure''' The entry 6pbj is ON HOLD Authors: Jiao, W., Fan, E., Blackmore, N.J., Parker, E.J. Description: The structure of 3-deoxy-d-arabino-heptulosonate 7-phosphate...

New page

'''Unreleased structure'''

The entry 6pbj is ON HOLD

Authors: Jiao, W., Fan, E., Blackmore, N.J., Parker, E.J.

Description: The structure of 3-deoxy-d-arabino-heptulosonate 7-phosphate synthase with Gly190Pro mutation
[[Category: Unreleased Structures]]
[[Category: Fan, E]]
[[Category: Jiao, W]]
[[Category: Parker, E.J]]
[[Category: Blackmore, N.J]]