4v36 - Revision history

OCA at 11:26, 9 May 2024

2024-05-09T11:26:19Z

←Older revision		Revision as of 11:26, 9 May 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4v36]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_licheniformis Bacillus licheniformis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4V36 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4V36 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4v36]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_licheniformis Bacillus licheniformis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4V36 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4V36 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=LYN:2,6-DIAMINO-HEXANOIC+ACID+AMIDE'>LYN</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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]] 2.1Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=LYN:2,6-DIAMINO-HEXANOIC+ACID+AMIDE'>LYN</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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=4v36 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v36 OCA], [https://pdbe.org/4v36 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4v36 RCSB], [https://www.ebi.ac.uk/pdbsum/4v36 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4v36 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=4v36 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v36 OCA], [https://pdbe.org/4v36 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4v36 RCSB], [https://www.ebi.ac.uk/pdbsum/4v36 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4v36 ProSAT]</span></td></tr>
	</table>		</table>

OCA at 08:01, 29 March 2023

2023-03-29T08:01:10Z

←Older revision		Revision as of 08:01, 29 March 2023
Line 3:		Line 3:
	<StructureSection load='4v36' size='340' side='right'caption='[[4v36]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='4v36' size='340' side='right'caption='[[4v36]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4v36]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"clostridium_licheniforme"_weigmann_1898 "clostridium licheniforme" weigmann 1898~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4V36 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4V36 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4v36]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_licheniformis Bacillus licheniformis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4V36 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4V36 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LYN:2,6-DIAMINO-HEXANOIC+ACID+AMIDE'>LYN</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene~~></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=LYN:2,6-DIAMINO-HEXANOIC+ACID+AMIDE'>LYN</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4v34\|4v34]], [[4v35\|4v35]]</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=4v36 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v36 OCA], [https://pdbe.org/4v36 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4v36 RCSB], [https://www.ebi.ac.uk/pdbsum/4v36 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4v36 ProSAT]</span></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysyltransferase Lysyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.2.3 2.3.2.3] </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=4v36 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v36 OCA], [~~http~~://pdbe.org/4v36 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4v36 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4v36 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4v36 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q65MA9_BACLD Q65MA9_BACLD] Catalyzes the transfer of a lysyl group from L-lysyl-tRNA(Lys) to membrane-bound phosphatidylglycerol (PG), which produces lysylphosphatidylglycerol (LPG), a major component of the bacterial membrane with a positive net charge. LPG synthesis contributes to bacterial virulence as it is involved in the resistance mechanism against cationic antimicrobial peptides (CAMP) produces by the host's immune system (defensins, cathelicidins) and by the competing microorganisms.[RuleBase:RU363042]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Clostridium licheniforme weigmann 1898~~]]	+	[[Category: Bacillus licheniformis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Lysyltransferase]]~~	+	[[Category: Hebecker S]]
-	[[Category: Hebecker, S]]	+	[[Category: Heinz DW]]
-	[[Category: Heinz~~, D W~~]]	+	[[Category: Krausze J]]
-	[[Category: Krausze, J]]	+	[[Category: Moser J]]
-	[[Category: Moser, J]]	+
-	~~[[Category: Bacterial resistance protein]]~~	+
-	~~[[Category: L-pg]]~~	+
-	~~[[Category: Lipid homeostasis]]~~	+
-	~~[[Category: Lysine amide]]~~	+
-	~~[[Category: Phenix. mr_rosetta]]~~	+
-	~~[[Category: T-rna dependent aminoacylation]]~~	+
-	~~[[Category: Transferase]]~~	+
-	~~[[Category: Yfix~~]]	+

OCA at 08:48, 23 May 2019

2019-05-23T08:48:35Z

←Older revision		Revision as of 08:48, 23 May 2019
Line 1:		Line 1:
		+
	==The structure of L-PGS from Bacillus licheniformis==		==The structure of L-PGS from Bacillus licheniformis==
-	<StructureSection load='4v36' size='340' side='right' caption='[[4v36]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='4v36' size='340' side='right'caption='[[4v36]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4v36]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4V36 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4V36 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4v36]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"clostridium_licheniforme"_weigmann_1898 "clostridium licheniforme" weigmann 1898]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4V36 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4V36 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LYN:2,6-DIAMINO-HEXANOIC+ACID+AMIDE'>LYN</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LYN:2,6-DIAMINO-HEXANOIC+ACID+AMIDE'>LYN</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4v34\|4v34]], [[4v35\|4v35]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4v34\|4v34]], [[4v35\|4v35]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysyltransferase Lysyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.2.3 2.3.2.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysyltransferase Lysyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.2.3 2.3.2.3] </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=4v36 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v36 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4v36 RCSB], [http://www.ebi.ac.uk/pdbsum/4v36 PDBsum]</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=4v36 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v36 OCA], [http://pdbe.org/4v36 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4v36 RCSB], [http://www.ebi.ac.uk/pdbsum/4v36 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4v36 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 16:		Line 17:
	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 4v36" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Clostridium licheniforme weigmann 1898]]
		+	[[Category: Large Structures]]
	[[Category: Lysyltransferase]]		[[Category: Lysyltransferase]]
	[[Category: Hebecker, S]]		[[Category: Hebecker, S]]

OCA at 07:36, 26 August 2015

2015-08-26T07:36:20Z

←Older revision		Revision as of 07:36, 26 August 2015
Line 8:		Line 8:
	<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=4v36 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v36 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4v36 RCSB], [http://www.ebi.ac.uk/pdbsum/4v36 PDBsum]</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=4v36 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v36 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4v36 RCSB], [http://www.ebi.ac.uk/pdbsum/4v36 PDBsum]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The cytoplasmic membrane is probably the most important physical barrier between microbes and the surrounding habitat. Aminoacylation of the polar head group of the phospholipid phosphatidylglycerol (PG) catalyzed by Ala-tRNAAla-dependent alanyl-phosphatidylglycerol synthase (A-PGS) or by Lys-tRNALys-dependent lysyl-phosphatidylglycerol synthase (L-PGS) enables bacteria to cope with cationic peptides that are harmful to the integrity of the cell membrane. Accordingly, these synthases also have been designated as multiple peptide resistance factors (MprF). They consist of a separable C-terminal catalytic domain and an N-terminal transmembrane flippase domain. Here we present the X-ray crystallographic structure of the catalytic domain of A-PGS from the opportunistic human pathogen Pseudomonas aeruginosa. In parallel, the structure of the related lysyl-phosphatidylglycerol-specific L-PGS domain from Bacillus licheniformis in complex with the substrate analog L-lysine amide is presented. Both proteins reveal a continuous tunnel that allows the hydrophobic lipid substrate PG and the polar aminoacyl-tRNA substrate to access the catalytic site from opposite directions. Substrate recognition of A-PGS versus L-PGS was investigated using misacylated tRNA variants. The structural work presented here in combination with biochemical experiments using artificial tRNA or artificial lipid substrates reveals the tRNA acceptor stem, the aminoacyl moiety, and the polar head group of PG as the main determinants for substrate recognition. A mutagenesis approach yielded the complementary amino acid determinants of tRNA interaction. These results have broad implications for the design of L-PGS and A-PGS inhibitors that could render microbial pathogens more susceptible to antimicrobial compounds.
		+
		+	Structures of two bacterial resistance factors mediating tRNA-dependent aminoacylation of phosphatidylglycerol with lysine or alanine.,Hebecker S, Krausze J, Hasenkampf T, Schneider J, Groenewold M, Reichelt J, Jahn D, Heinz DW, Moser J Proc Natl Acad Sci U S A. 2015 Aug 10. pii: 201511167. PMID:26261323<ref>PMID:26261323</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 12:24, 20 August 2015

2015-08-20T12:24:32Z

←Older revision		Revision as of 12:24, 20 August 2015
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==The structure of L-PGS from Bacillus licheniformis==
-		+	<StructureSection load='4v36' size='340' side='right' caption='[[4v36]], [[Resolution\|resolution]] 2.10Å' scene=''>
-	~~The entry~~ 4v36 is ~~ON HOLD until Paper Publication~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4v36]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4V36 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4V36 FirstGlance]. <br>
-	~~Authors~~: ~~Krausze~~, J., ~~Hebecker~~, S., ~~Heinz, D~~.W., ~~Moser, J~~.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LYN:2,6-DIAMINO-HEXANOIC+ACID+AMIDE'>LYN</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
-		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4v34\|4v34]], [[4v35\|4v35]]</td></tr>
-	~~Description~~: ~~The structure of L~~-~~PGS from Bacillus licheniformis~~	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysyltransferase Lysyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.2.3 2.3.2.3] </span></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=4v36 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v36 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4v36 RCSB], [http://www.ebi.ac.uk/pdbsum/4v36 PDBsum]</span></td></tr>
-	[[Category: ~~Moser, J~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Lysyltransferase]]
	[[Category: Hebecker, S]]		[[Category: Hebecker, S]]
		+	[[Category: Heinz, D W]]
	[[Category: Krausze, J]]		[[Category: Krausze, J]]
-	[[Category: ~~Heinz~~, D.W]]	+	[[Category: Moser, J]]
		+	[[Category: Bacterial resistance protein]]
		+	[[Category: L-pg]]
		+	[[Category: Lipid homeostasis]]
		+	[[Category: Lysine amide]]
		+	[[Category: Phenix. mr_rosetta]]
		+	[[Category: T-rna dependent aminoacylation]]
		+	[[Category: Transferase]]
		+	[[Category: Yfix]]

OCA at 19:03, 24 December 2014

2014-12-24T19:03:52Z

←Older revision		Revision as of 19:03, 24 December 2014
Line 6:		Line 6:

	Description: The structure of L-PGS from Bacillus licheniformis		Description: The structure of L-PGS from Bacillus licheniformis
		+	[[Category: Unreleased Structures]]
		+	[[Category: Moser, J]]
		+	[[Category: Hebecker, S]]
		+	[[Category: Krausze, J]]
		+	[[Category: Heinz, D.W]]

OCA at 10:21, 29 October 2014

2014-10-29T10:21:35Z

←Older revision		Revision as of 10:21, 29 October 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4v36 is ON HOLD	+	The entry 4v36 is ON HOLD until Paper Publication

	Authors: Krausze, J., Hebecker, S., Heinz, D.W., Moser, J.		Authors: Krausze, J., Hebecker, S., Heinz, D.W., Moser, J.

	Description: The structure of L-PGS from Bacillus licheniformis		Description: The structure of L-PGS from Bacillus licheniformis

OCA: Protected "4v36" [edit=sysop:move=sysop]

2014-10-22T10:05:17Z

Protected "4v36" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:05, 22 October 2014

OCA: New page: '''Unreleased structure''' The entry 4v36 is ON HOLD Authors: Krausze, J., Hebecker, S., Heinz, D.W., Moser, J. Description: The structure of L-PGS from Bacillus licheniformis

2014-10-22T10:05:16Z

New page: '''Unreleased structure''' The entry 4v36 is ON HOLD Authors: Krausze, J., Hebecker, S., Heinz, D.W., Moser, J. Description: The structure of L-PGS from Bacillus licheniformis

New page

'''Unreleased structure'''

The entry 4v36 is ON HOLD

Authors: Krausze, J., Hebecker, S., Heinz, D.W., Moser, J.

Description: The structure of L-PGS from Bacillus licheniformis