5azb - Revision history

OCA at 09:06, 20 March 2024

2024-03-20T09:06:40Z

←Older revision		Revision as of 09:06, 20 March 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5azb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AZB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5AZB FirstGlance]. <br>		<table><tr><td colspan='2'>[[5azb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AZB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5AZB FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene>, <scene name='pdbligand=PGT:(1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL+STEARATE'>PGT</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</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]] 1.6Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene>, <scene name='pdbligand=PGT:(1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL+STEARATE'>PGT</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene></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=5azb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5azb OCA], [https://pdbe.org/5azb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5azb RCSB], [https://www.ebi.ac.uk/pdbsum/5azb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5azb 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=5azb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5azb OCA], [https://pdbe.org/5azb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5azb RCSB], [https://www.ebi.ac.uk/pdbsum/5azb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5azb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/LGT_ECOLI LGT_ECOLI] Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins.<ref>PMID:8051048</ref>		[https://www.uniprot.org/uniprot/LGT_ECOLI LGT_ECOLI] Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins.<ref>PMID:8051048</ref>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Lipoprotein biogenesis is essential for bacterial survival. Phosphatidylglycerol:prolipoprotein diacylglyceryl transferase (Lgt) is an integral membrane enzyme that catalyses the first reaction of the three-step post-translational lipid modification. Deletion of the lgt gene is lethal to most Gram-negative bacteria. Here we present the crystal structures of Escherichia coli Lgt in complex with phosphatidylglycerol and the inhibitor palmitic acid at 1.9 and 1.6 A resolution, respectively. The structures reveal the presence of two binding sites and support the previously reported structure-function relationships of Lgt. Complementation results of lgt-knockout cells with different mutant Lgt variants revealed critical residues, including Arg143 and Arg239, that are essential for diacylglyceryl transfer. Using a GFP-based in vitro assay, we correlated the activities of Lgt with structural observations. Together, the structural and biochemical data support a mechanism whereby substrate and product, lipid-modified lipobox-containing peptide, enter and leave the enzyme laterally relative to the lipid bilayer.
-
-	Crystal structure of E. coli lipoprotein diacylglyceryl transferase.,Mao G, Zhao Y, Kang X, Li Z, Zhang Y, Wang X, Sun F, Sankaran K, Zhang XC Nat Commun. 2016 Jan 5;7:10198. doi: 10.1038/ncomms10198. PMID:26729647<ref>PMID:26729647</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 5azb" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:32, 31 May 2023

2023-05-31T06:32:30Z

←Older revision		Revision as of 06:32, 31 May 2023
Line 3:		Line 3:
	<StructureSection load='5azb' size='340' side='right'caption='[[5azb]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='5azb' size='340' side='right'caption='[[5azb]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5azb]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Ecoli Ecoli~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AZB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5AZB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5azb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AZB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5AZB FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene>, <scene name='pdbligand=PGT:(1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL+STEARATE'>PGT</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene>, <scene name='pdbligand=PGT:(1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL+STEARATE'>PGT</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5azc\|5azc]]</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=5azb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5azb OCA], [https://pdbe.org/5azb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5azb RCSB], [https://www.ebi.ac.uk/pdbsum/5azb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5azb ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lgt, umpA, b2828, JW2796 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=5azb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5azb OCA], [~~http~~://pdbe.org/5azb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5azb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5azb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5azb ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/LGT_ECOLI LGT_ECOLI]] Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins.<ref>PMID:8051048</ref>	+	[https://www.uniprot.org/uniprot/LGT_ECOLI LGT_ECOLI] Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins.<ref>PMID:8051048</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Ecoli~~]]	+	[[Category: Escherichia coli K-12]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Mao, G]]	+	[[Category: Mao G]]
-	[[Category: Zhang~~, X C~~]]	+	[[Category: Zhang XC]]
-	[[Category: Zhao, Y]]	+	[[Category: Zhao Y]]
-	~~[[Category: Complex]]~~	+
-	~~[[Category: Inhibitor]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 09:57, 26 February 2020

2020-02-26T09:57:35Z

←Older revision		Revision as of 09:57, 26 February 2020
Line 1:		Line 1:
		+
	==Crystal structure of Escherichia coli Lgt in complex with phosphatidylglycerol and the inhibitor palmitic acid==		==Crystal structure of Escherichia coli Lgt in complex with phosphatidylglycerol and the inhibitor palmitic acid==
-	<StructureSection load='5azb' size='340' side='right' caption='[[5azb]], [[Resolution\|resolution]] 1.60Å' scene=''>	+	<StructureSection load='5azb' size='340' side='right'caption='[[5azb]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5azb]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AZB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5AZB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5azb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AZB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5AZB FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene>, <scene name='pdbligand=PGT:(1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL+STEARATE'>PGT</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene>, <scene name='pdbligand=PGT:(1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL+STEARATE'>PGT</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5azc\|5azc]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5azc\|5azc]]</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=5azb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5azb OCA], [http://pdbe.org/5azb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5azb RCSB], [http://www.ebi.ac.uk/pdbsum/5azb PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lgt, umpA, b2828, JW2796 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=5azb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5azb OCA], [http://pdbe.org/5azb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5azb RCSB], [http://www.ebi.ac.uk/pdbsum/5azb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5azb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 22:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Ecoli]]
		+	[[Category: Large Structures]]
	[[Category: Mao, G]]		[[Category: Mao, G]]
	[[Category: Zhang, X C]]		[[Category: Zhang, X C]]

OCA at 02:19, 28 January 2016

2016-01-28T02:19:38Z

←Older revision		Revision as of 02:19, 28 January 2016
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Crystal structure of Escherichia coli Lgt in complex with phosphatidylglycerol and the inhibitor palmitic acid==
		+	<StructureSection load='5azb' size='340' side='right' caption='[[5azb]], [[Resolution\|resolution]] 1.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5azb]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AZB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5AZB FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene>, <scene name='pdbligand=PGT:(1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL+STEARATE'>PGT</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5azc\|5azc]]</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=5azb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5azb OCA], [http://pdbe.org/5azb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5azb RCSB], [http://www.ebi.ac.uk/pdbsum/5azb PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/LGT_ECOLI LGT_ECOLI]] Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins.<ref>PMID:8051048</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Lipoprotein biogenesis is essential for bacterial survival. Phosphatidylglycerol:prolipoprotein diacylglyceryl transferase (Lgt) is an integral membrane enzyme that catalyses the first reaction of the three-step post-translational lipid modification. Deletion of the lgt gene is lethal to most Gram-negative bacteria. Here we present the crystal structures of Escherichia coli Lgt in complex with phosphatidylglycerol and the inhibitor palmitic acid at 1.9 and 1.6 A resolution, respectively. The structures reveal the presence of two binding sites and support the previously reported structure-function relationships of Lgt. Complementation results of lgt-knockout cells with different mutant Lgt variants revealed critical residues, including Arg143 and Arg239, that are essential for diacylglyceryl transfer. Using a GFP-based in vitro assay, we correlated the activities of Lgt with structural observations. Together, the structural and biochemical data support a mechanism whereby substrate and product, lipid-modified lipobox-containing peptide, enter and leave the enzyme laterally relative to the lipid bilayer.

-	~~The entry 5azb is ON HOLD until Paper Publication~~	+	Crystal structure of E. coli lipoprotein diacylglyceryl transferase.,Mao G, Zhao Y, Kang X, Li Z, Zhang Y, Wang X, Sun F, Sankaran K, Zhang XC Nat Commun. 2016 Jan 5;7:10198. doi: 10.1038/ncomms10198. PMID:26729647<ref>PMID:26729647</ref>

-	~~Authors: Zhang~~, X.C.~~, Mao, G., Zhao, Y~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~Structure of a protein~~	+	<div class="pdbe-citations 5azb" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Mao, G]]
		+	[[Category: Zhang, X C]]
	[[Category: Zhao, Y]]		[[Category: Zhao, Y]]
-	[[Category: ~~Mao, G~~]]	+	[[Category: Complex]]
-	[[Category: ~~Zhang, X.C~~]]	+	[[Category: Inhibitor]]
		+	[[Category: Transferase]]

OCA at 10:01, 16 December 2015

2015-12-16T10:01:38Z

←Older revision		Revision as of 10:01, 16 December 2015
Line 7:		Line 7:
	Description: Structure of a protein		Description: Structure of a protein
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Zhang, X.C]]
	[[Category: Zhao, Y]]		[[Category: Zhao, Y]]
	[[Category: Mao, G]]		[[Category: Mao, G]]
		+	[[Category: Zhang, X.C]]

OCA at 00:44, 1 December 2015

2015-12-01T00:44:31Z

←Older revision		Revision as of 00:44, 1 December 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5azb is ON HOLD	+	The entry 5azb is ON HOLD until Paper Publication

	Authors: Zhang, X.C., Mao, G., Zhao, Y.		Authors: Zhang, X.C., Mao, G., Zhao, Y.

OCA at 00:57, 16 October 2015

2015-10-16T00:57:52Z

←Older revision		Revision as of 00:57, 16 October 2015
Line 5:		Line 5:
	Authors: Zhang, X.C., Mao, G., Zhao, Y.		Authors: Zhang, X.C., Mao, G., Zhao, Y.

-	Description: ~~structure~~ of a protein	+	Description: Structure of a protein
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Zhang, X.C]]		[[Category: Zhang, X.C]]
	[[Category: Zhao, Y]]		[[Category: Zhao, Y]]
	[[Category: Mao, G]]		[[Category: Mao, G]]

OCA: Protected "5azb" [edit=sysop:move=sysop]

2015-10-07T10:51:42Z

Protected "5azb" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:51, 7 October 2015

OCA: New page: '''Unreleased structure''' The entry 5azb is ON HOLD Authors: Zhang, X.C., Mao, G., Zhao, Y. Description: structure of a protein Category: Unreleased Structures [[Category: Zhang, ...

2015-10-07T10:51:41Z

New page: '''Unreleased structure''' The entry 5azb is ON HOLD Authors: Zhang, X.C., Mao, G., Zhao, Y. Description: structure of a protein Category: Unreleased Structures [[Category: Zhang, ...

New page

'''Unreleased structure'''

The entry 5azb is ON HOLD

Authors: Zhang, X.C., Mao, G., Zhao, Y.

Description: structure of a protein
[[Category: Unreleased Structures]]
[[Category: Zhang, X.C]]
[[Category: Zhao, Y]]
[[Category: Mao, G]]