6iox - Revision history

OCA at 09:48, 22 November 2023

2023-11-22T09:48:18Z

← Older revision		Revision as of 09:48, 22 November 2023
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	<StructureSection load='6iox' size='340' side='right'caption='[[6iox]], [[Resolution\|resolution]] 2.04Å' scene=''>		<StructureSection load='6iox' size='340' side='right'caption='[[6iox]], [[Resolution\|resolution]] 2.04Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6iox]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Porg3 Porg3~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IOX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6IOX FirstGlance]. <br>		<table><tr><td colspan='2'>[[6iox]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Porphyromonas_gingivalis_ATCC_33277 Porphyromonas gingivalis ATCC 33277]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IOX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6IOX FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=ACO:ACETYL+COENZYME+*A'>ACO</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]] 2.04Å</td></tr>
	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~PGN_1179 ([http~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=431947 PORG3])~~</td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACO:ACETYL+COENZYME+*A'>ACO</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=6iox FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6iox OCA], [~~http~~://pdbe.org/6iox PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6iox RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6iox PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6iox 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=6iox FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6iox OCA], [https://pdbe.org/6iox PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6iox RCSB], [https://www.ebi.ac.uk/pdbsum/6iox PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6iox ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/B2RK03_PORG3 B2RK03_PORG3]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Porg3~~]]		[[Category: Porphyromonas gingivalis ATCC 33277]]
	[[Category: Kezuka, Y]]		[[Category: Kezuka Y]]
	[[Category: Nonaka, T]]		[[Category: Nonaka T]]
	[[Category: Yoshida, Y]]		[[Category: Yoshida Y]]
	~~[[Category: Atp]]~~
	~~[[Category: Essential gene]]~~
	~~[[Category: Phosphotransacetylase]]~~
	~~[[Category: Porphyromonas gingivali]]~~
	~~[[Category: Transferase~~]]

OCA at 13:38, 10 May 2019

2019-05-10T13:38:41Z

← Older revision		Revision as of 13:38, 10 May 2019
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	<StructureSection load='6iox' size='340' side='right'caption='[[6iox]], [[Resolution\|resolution]] 2.04Å' scene=''>		<StructureSection load='6iox' size='340' side='right'caption='[[6iox]], [[Resolution\|resolution]] 2.04Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6iox]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IOX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IOX FirstGlance]. <br>		<table><tr><td colspan='2'>[[6iox]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Porg3 Porg3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IOX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IOX FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACO:ACETYL+COENZYME+*A'>ACO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACO:ACETYL+COENZYME+*A'>ACO</scene></td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PGN_1179 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=431947 PORG3])</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=6iox FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6iox OCA], [http://pdbe.org/6iox PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6iox RCSB], [http://www.ebi.ac.uk/pdbsum/6iox PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6iox 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=6iox FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6iox OCA], [http://pdbe.org/6iox PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6iox RCSB], [http://www.ebi.ac.uk/pdbsum/6iox PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6iox ProSAT]</span></td></tr>
	</table>		</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Acetyl phosphate (AcP) is generally produced from acetyl coenzyme A by phosphotransacetylase (Pta), and subsequent reaction with ADP, catalyzed by acetate kinase (Ack), produces ATP. The mechanism of ATP production in Porphyromonas gingivalis is poorly understood. The aim of this study was to explore the molecular basis of the Pta-Ack pathway in this microorganism. Pta and Ack from P. gingivalis ATCC 33277 were enzymatically and structurally characterized. Structural and mutational analyses suggest that Pta is a dimer with two substrate-binding sites in each subunit. Ack is also dimeric, with a catalytic cleft in each subunit, and structural analysis indicates a dramatic domain motion that opens and closes the cleft during catalysis. ATP formation by Ack proceeds via a sequential mechanism. Reverse transcription-PCR analysis demonstrated that the pta (PGN_1179) and ack (PGN_1178) genes, tandemly located in the genome, are cotranscribed as an operon. Inactivation of pta or ack in P. gingivalis by homologous recombination was successful only when the inactivated gene was expressed in trans. Therefore, both pta and ack genes are essential for this microorganism. Insights into the Pta-Ack pathway reported herein would be helpful to understand the energy acquisition in P. gingivalis.

			Characterization of the phosphotransacetylase-acetate kinase pathway for ATP production in Porphyromonas gingivalis.,Yoshida Y, Sato M, Nonaka T, Hasegawa Y, Kezuka Y J Oral Microbiol. 2019 Apr 4;11(1):1588086. doi: 10.1080/20002297.2019.1588086., eCollection 2019. PMID:31007866<ref>PMID:31007866</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 6iox" style="background-color:#fffaf0;"></div>
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
			[[Category: Porg3]]
	[[Category: Kezuka, Y]]		[[Category: Kezuka, Y]]
	[[Category: Nonaka, T]]		[[Category: Nonaka, T]]

OCA at 06:50, 24 April 2019

2019-04-24T06:50:50Z

← Older revision		Revision as of 06:50, 24 April 2019
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	~~'''Unreleased structure'''~~

	~~The entry~~ 6iox is ~~ON HOLD until Paper Publication~~		==Crystal structure of Porphyromonas gingivalis phosphotransacetylase in complex with acetyl-CoA==
			<StructureSection load='6iox' size='340' side='right'caption='[[6iox]], [[Resolution\|resolution]] 2.04Å' scene=''>
	~~Authors~~: ~~Kezuka~~, Y., ~~Yoshida~~, Y., ~~Nonaka~~, T.		== Structural highlights ==
			<table><tr><td colspan='2'>[[6iox]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IOX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IOX FirstGlance]. <br>
	~~Description~~: ~~Crystal structure of Porphyromonas gingivalis phosphotransacetylase in complex with acetyl-CoA~~		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACO:ACETYL+COENZYME+*A'>ACO</scene></td></tr>
	[[Category: ~~Unreleased Structures~~]]		<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=6iox FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6iox OCA], [http://pdbe.org/6iox PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6iox RCSB], [http://www.ebi.ac.uk/pdbsum/6iox PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6iox ProSAT]</span></td></tr>
			</table>
			__TOC__
			</StructureSection>
			[[Category: Large Structures]]
			[[Category: Kezuka, Y]]
	[[Category: Nonaka, T]]		[[Category: Nonaka, T]]
	~~[[Category: Kezuka, Y]]~~
	[[Category: Yoshida, Y]]		[[Category: Yoshida, Y]]
			[[Category: Atp]]
			[[Category: Essential gene]]
			[[Category: Phosphotransacetylase]]
			[[Category: Porphyromonas gingivali]]
			[[Category: Transferase]]

OCA at 18:51, 2 December 2018

2018-12-02T18:51:11Z

← Older revision		Revision as of 18:51, 2 December 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 6iox is ON HOLD		The entry 6iox is ON HOLD until Paper Publication

	Authors: Kezuka, Y., Yoshida, Y., Nonaka, T.		Authors: Kezuka, Y., Yoshida, Y., Nonaka, T.
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	Description: Crystal structure of Porphyromonas gingivalis phosphotransacetylase in complex with acetyl-CoA		Description: Crystal structure of Porphyromonas gingivalis phosphotransacetylase in complex with acetyl-CoA
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
			[[Category: Nonaka, T]]
	[[Category: Kezuka, Y]]		[[Category: Kezuka, Y]]
	[[Category: Yoshida, Y]]		[[Category: Yoshida, Y]]
	~~[[Category: Nonaka, T]]~~

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

2018-11-07T10:45:38Z

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

← Older revision	Revision as of 10:45, 7 November 2018
(No difference)

OCA: New page: '''Unreleased structure''' The entry 6iox is ON HOLD Authors: Kezuka, Y., Yoshida, Y., Nonaka, T. Description: Crystal structure of Porphyromonas gingivalis phosphotransacetylase in co...

2018-11-07T10:45:37Z

New page: '''Unreleased structure''' The entry 6iox is ON HOLD Authors: Kezuka, Y., Yoshida, Y., Nonaka, T. Description: Crystal structure of Porphyromonas gingivalis phosphotransacetylase in co...

New page

'''Unreleased structure'''

The entry 6iox is ON HOLD

Authors: Kezuka, Y., Yoshida, Y., Nonaka, T.

Description: Crystal structure of Porphyromonas gingivalis phosphotransacetylase in complex with acetyl-CoA
[[Category: Unreleased Structures]]
[[Category: Kezuka, Y]]
[[Category: Yoshida, Y]]
[[Category: Nonaka, T]]