5zqb - Revision history

OCA at 09:03, 22 November 2023

OCA — Wed, 22 Nov 2023 09:03:38 GMT

←Older revision		Revision as of 09:03, 22 November 2023
Line 1:		Line 1:

	==Crystal Structure of Penicillin-Binding Protein D2 from Listeria monocytogenes in the Penicillin G bound form==		==Crystal Structure of Penicillin-Binding Protein D2 from Listeria monocytogenes in the Penicillin G bound form==
-	<StructureSection load='5zqb' size='340' side='right' caption='[[5zqb]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='5zqb' size='340' side='right'caption='[[5zqb]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zqb]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Lismo Lismo~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZQB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5ZQB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zqb]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Listeria_monocytogenes_EGD-e Listeria monocytogenes EGD-e]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZQB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5ZQB FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=GOL:GLYCEROL'>GOL</scene~~>, ~~<scene name='pdbligand=PNM:OPEN+FORM+-+PENICILLIN+G'>PNM</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]] 1.896Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~lmo2812 ([http~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=169963 LISMO])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PNM:OPEN+FORM+-+PENICILLIN+G'>PNM</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=5zqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zqb OCA], [~~http~~://pdbe.org/5zqb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5zqb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5zqb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5zqb 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=5zqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zqb OCA], [https://pdbe.org/5zqb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5zqb RCSB], [https://www.ebi.ac.uk/pdbsum/5zqb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5zqb ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q8Y3M3_LISMO Q8Y3M3_LISMO]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Lismo]]~~	+	[[Category: Large Structures]]
-	~~[[Category: Jeong, J H]]~~	+	[[Category: Listeria monocytogenes EGD-e]]
-	~~[[Category: Kim, Y G]]~~	+	[[Category: Jeong JH]]
-	~~[[Category: Antibiotic]]~~	+	[[Category: Kim YG]]
-	~~[[Category: Hypothetical~~]]	+
-	[[Category: Listeria ~~monocytogene~~]]	+
-	[[Category: ~~Lmo2812~~]]	+
-	[[Category: ~~Lmpbpd2]]~~	+
-	~~[[Category: Penicillin-binding protein~~]]	+

OCA at 06:30, 22 August 2018

OCA — Wed, 22 Aug 2018 06:30:54 GMT

←Older revision		Revision as of 06:30, 22 August 2018
Line 3:		Line 3:
	<StructureSection load='5zqb' size='340' side='right' caption='[[5zqb]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='5zqb' size='340' side='right' caption='[[5zqb]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zqb]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZQB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZQB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zqb]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Lismo Lismo]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZQB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZQB FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PNM:OPEN+FORM+-+PENICILLIN+G'>PNM</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PNM:OPEN+FORM+-+PENICILLIN+G'>PNM</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lmo2812 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=169963 LISMO])</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=5zqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zqb OCA], [http://pdbe.org/5zqb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zqb RCSB], [http://www.ebi.ac.uk/pdbsum/5zqb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zqb 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=5zqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zqb OCA], [http://pdbe.org/5zqb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zqb RCSB], [http://www.ebi.ac.uk/pdbsum/5zqb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zqb ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	beta-lactam antibiotics that inhibit penicillin-binding proteins (PBPs) have been widely used in the treatment of bacterial infections. However, the molecular basis underlying the different inhibitory potencies of beta-lactams against specific PBPs is not fully understood. Here, we present the crystal structures of PBPD2 from Listeria monocytogenes, a Gram-positive food-borne bacterial pathogen that causes listeriosis in humans. The acylated structures in complex with four antibiotics (penicillin G, ampicillin, cefotaxime, and cefuroxime) revealed that the beta-lactam core structures were recognized by a common set of residues; however, the R1 side chains of each antibiotic participate in different interactions with PBPD2. In addition, the structural complementarities between the side chains of beta-lactams and the enzyme were found to be highly correlated with the relative reactivities of penam or cephem antibiotics against PBPD2. Our study provides the structural basis for the inhibition of PBPD2 by clinically important beta-lactam antibiotics that are commonly used in listeriosis treatment. Our findings imply that the modification of beta-lactam side chains based on structural complementarity could be useful for the development of potent inhibitors against beta-lactam-resistant PBPs.
		+
		+	Crystal structures of penicillin-binding protein D2 from Listeria monocytogenes: Structural basis for antibiotic specificity.,Jeong JH, Cha HJ, Kim YG Antimicrob Agents Chemother. 2018 Aug 6. pii: AAC.00796-18. doi:, 10.1128/AAC.00796-18. PMID:30082290<ref>PMID:30082290</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5zqb" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Lismo]]
	[[Category: Jeong, J H]]		[[Category: Jeong, J H]]
	[[Category: Kim, Y G]]		[[Category: Kim, Y G]]

OCA at 07:12, 25 July 2018

OCA — Wed, 25 Jul 2018 07:12:00 GMT

←Older revision		Revision as of 07:12, 25 July 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 5zqb is ON HOLD until Paper Publication~~	+	==Crystal Structure of Penicillin-Binding Protein D2 from Listeria monocytogenes in the Penicillin G bound form==
-		+	<StructureSection load='5zqb' size='340' side='right' caption='[[5zqb]], [[Resolution\|resolution]] 1.90Å' scene=''>
-	~~Authors: Jeong, J.H., Kim, Y.G.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5zqb]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZQB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZQB FirstGlance]. <br>
-	~~Description:~~ Crystal Structure of Penicillin-Binding Protein D2 from Listeria monocytogenes in the Penicillin G bound form	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PNM:OPEN+FORM+-+PENICILLIN+G'>PNM</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=5zqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zqb OCA], [http://pdbe.org/5zqb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zqb RCSB], [http://www.ebi.ac.uk/pdbsum/5zqb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zqb ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Kim~~, Y.G]]	+	</table>
-	[[Category: Jeong, J.H]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Jeong, J H]]
		+	[[Category: Kim, Y G]]
		+	[[Category: Antibiotic]]
		+	[[Category: Hypothetical]]
		+	[[Category: Listeria monocytogene]]
		+	[[Category: Lmo2812]]
		+	[[Category: Lmpbpd2]]
		+	[[Category: Penicillin-binding protein]]

OCA at 03:50, 16 May 2018

OCA — Wed, 16 May 2018 03:50:02 GMT

←Older revision		Revision as of 03:50, 16 May 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Jeong, J.H., Kim, Y.G.		Authors: Jeong, J.H., Kim, Y.G.

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

OCA — Wed, 25 Apr 2018 03:54:48 GMT

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

←Older revision

Revision as of 03:54, 25 April 2018

OCA: New page: '''Unreleased structure''' The entry 5zqb is ON HOLD Authors: Jeong, J.H., Kim, Y.G. Description: Crystal Structure of Penicillin-Binding Protein D2 from Listeria monocytogenes in the ...

OCA — Wed, 25 Apr 2018 03:54:46 GMT

New page: '''Unreleased structure''' The entry 5zqb is ON HOLD Authors: Jeong, J.H., Kim, Y.G. Description: Crystal Structure of Penicillin-Binding Protein D2 from Listeria monocytogenes in the ...

New page

'''Unreleased structure'''

The entry 5zqb is ON HOLD

Authors: Jeong, J.H., Kim, Y.G.

Description: Crystal Structure of Penicillin-Binding Protein D2 from Listeria monocytogenes in the Penicillin G bound form
[[Category: Unreleased Structures]]
[[Category: Kim, Y.G]]
[[Category: Jeong, J.H]]