7ony - Revision history

OCA at 12:53, 1 February 2024

2024-02-01T12:53:25Z

←Older revision		Revision as of 12:53, 1 February 2024
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	<StructureSection load='7ony' size='340' side='right'caption='[[7ony]], [[Resolution\|resolution]] 1.77Å' scene=''>		<StructureSection load='7ony' size='340' side='right'caption='[[7ony]], [[Resolution\|resolution]] 1.77Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7ony]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Pseae Pseae~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7ONY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ONY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7ony]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_aeruginosa_PAO1 Pseudomonas aeruginosa PAO1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7ONY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ONY FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>~~, ~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</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]] 1.77Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[7onx\|7onx]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~ftsI, pbpB, PA4418 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=208964 PSEAE])</td~~></tr>	+
-	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks'>[https~~:~~//en.wikipedia.org/wiki/Serine~~-~~type_D~~-~~Ala~~-~~D-Ala_carboxypeptidase Serine-type D-Ala-D-Ala carboxypeptidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.16.4 3.4.16.4]~~ </~~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=7ony FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ony OCA], [https://pdbe.org/7ony PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ony RCSB], [https://www.ebi.ac.uk/pdbsum/7ony PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ony 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=7ony FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ony OCA], [https://pdbe.org/7ony PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ony RCSB], [https://www.ebi.ac.uk/pdbsum/7ony PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ony ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/FTSI_PSEAE FTSI_PSEAE]] Catalyzes cross-linking of the peptidoglycan cell wall at the division septum (By similarity). Binds penicillin (PubMed:20580675).[HAMAP-Rule:MF_02080]<ref>PMID:20580675</ref>	+	[https://www.uniprot.org/uniprot/FTSI_PSEAE FTSI_PSEAE] Catalyzes cross-linking of the peptidoglycan cell wall at the division septum (By similarity). Binds penicillin (PubMed:20580675).[HAMAP-Rule:MF_02080]<ref>PMID:20580675</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 7ony" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 7ony" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Penicillin-binding protein 3D structures\|Penicillin-binding protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Pseae]]~~	+	[[Category: Pseudomonas aeruginosa PAO1]]
-	~~[[Category: Serine-type D-Ala-D-Ala carboxypeptidase~~]]	+	[[Category: Freischem S]]
-	[[Category: Freischem, S]]	+	[[Category: Grimm I]]
-	[[Category: Grimm, I]]	+	[[Category: Weiergraeber OH]]
-	[[Category: Weiergraeber~~, O H]]~~	+
-	~~[[Category: Membrane protein]]~~	+
-	~~[[Category: Pbp3]]~~	+
-	~~[[Category: Peptidoglycan synthesis~~]]	+

OCA at 07:04, 22 September 2021

2021-09-22T07:04:41Z

←Older revision		Revision as of 07:04, 22 September 2021
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	==Crystal structure of PBP3 from P. aeruginosa==		==Crystal structure of PBP3 from P. aeruginosa==
-	<StructureSection load='7ony' size='340' side='right'caption='[[7ony]]' scene=''>	+	<StructureSection load='7ony' size='340' side='right'caption='[[7ony]], [[Resolution\|resolution]] 1.77Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7ONY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ONY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7ony]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseae Pseae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7ONY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ONY FirstGlance]. <br>
-	</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=7ony FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ony OCA], [https://pdbe.org/7ony PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ony RCSB], [https://www.ebi.ac.uk/pdbsum/7ony PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ony ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[7onx\|7onx]]</div></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ftsI, pbpB, PA4418 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=208964 PSEAE])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Serine-type_D-Ala-D-Ala_carboxypeptidase Serine-type D-Ala-D-Ala carboxypeptidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.16.4 3.4.16.4] </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=7ony FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ony OCA], [https://pdbe.org/7ony PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ony RCSB], [https://www.ebi.ac.uk/pdbsum/7ony PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ony ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/FTSI_PSEAE FTSI_PSEAE]] Catalyzes cross-linking of the peptidoglycan cell wall at the division septum (By similarity). Binds penicillin (PubMed:20580675).[HAMAP-Rule:MF_02080]<ref>PMID:20580675</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Novel antimicrobial strategies are urgently required because of the rising threat of multi drug resistant bacterial strains and the infections caused by them. Among the available target structures, the so-called penicillin binding proteins are of particular interest, owing to their good accessibility in the periplasmic space, and the lack of homologous proteins in humans, reducing the risk of side effects of potential drugs. In this report, we focus on the interaction of the innovative beta-lactam antibiotic AIC499 with penicillin binding protein 3 (PBP3) from Escherichia coli and Pseudomonas aeruginosa. This recently developed monobactam displays broad antimicrobial activity, against Gram-negative strains, and improved resistance to most classes of beta-lactamases. By analyzing crystal structures of the respective complexes, we were able to explore the binding mode of AIC499 to its target proteins. In addition, the apo structures determined for PBP3, from P. aeruginosa and the catalytic transpeptidase domain of the E. coli orthologue, provide new insights into the dynamics of these proteins and the impact of drug binding.
		+
		+	Interaction Mode of the Novel Monobactam AIC499 Targeting Penicillin Binding Protein 3 of Gram-Negative Bacteria.,Freischem S, Grimm I, Lopez-Perez A, Willbold D, Klenke B, Vuong C, Dingley AJ, Weiergraber OH Biomolecules. 2021 Jul 19;11(7). pii: biom11071057. doi: 10.3390/biom11071057. PMID:34356681<ref>PMID:34356681</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7ony" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Freischem S]]	+	[[Category: Pseae]]
-	[[Category: Grimm I]]	+	[[Category: Serine-type D-Ala-D-Ala carboxypeptidase]]
-	[[Category: Weiergraeber OH]]	+	[[Category: Freischem, S]]
		+	[[Category: Grimm, I]]
		+	[[Category: Weiergraeber, O H]]
		+	[[Category: Membrane protein]]
		+	[[Category: Pbp3]]
		+	[[Category: Peptidoglycan synthesis]]

OCA at 10:21, 4 August 2021

2021-08-04T10:21:12Z

←Older revision		Revision as of 10:21, 4 August 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 7ony ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of PBP3 from P. aeruginosa==
-		+	<StructureSection load='7ony' size='340' side='right'caption='[[7ony]]' scene=''>
-	~~Authors~~: ~~Freischem~~, S., ~~Grimm~~, I., ~~Weiergraeber~~, O.H.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7ONY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ONY FirstGlance]. <br>
-	~~Description: Crystal structure of PBP3 from P. aeruginosa~~	+	</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=7ony FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ony OCA], [https://pdbe.org/7ony PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ony RCSB], [https://www.ebi.ac.uk/pdbsum/7ony PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ony ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: Freischem, S]]	+	__TOC__
-	[[Category: Grimm, I]]	+	</StructureSection>
-	[[Category: Weiergraeber~~, O.H~~]]	+	[[Category: Large Structures]]
		+	[[Category: Freischem S]]
		+	[[Category: Grimm I]]
		+	[[Category: Weiergraeber OH]]

OCA at 11:12, 9 June 2021

2021-06-09T11:12:57Z

←Older revision		Revision as of 11:12, 9 June 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7ony is ON HOLD	+	The entry 7ony is ON HOLD until Paper Publication

	Authors: Freischem, S., Grimm, I., Weiergraeber, O.H.		Authors: Freischem, S., Grimm, I., Weiergraeber, O.H.

OCA: Protected "7ony" [edit=sysop:move=sysop]

2021-06-02T13:40:38Z

Protected "7ony" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:40, 2 June 2021

OCA: New page: '''Unreleased structure''' The entry 7ony is ON HOLD Authors: Freischem, S., Grimm, I., Weiergraeber, O.H. Description: Crystal structure of PBP3 from P. aeruginosa [[Category: Unrelea...

2021-06-02T13:40:37Z

New page: '''Unreleased structure''' The entry 7ony is ON HOLD Authors: Freischem, S., Grimm, I., Weiergraeber, O.H. Description: Crystal structure of PBP3 from P. aeruginosa [[Category: Unrelea...

New page

'''Unreleased structure'''

The entry 7ony is ON HOLD

Authors: Freischem, S., Grimm, I., Weiergraeber, O.H.

Description: Crystal structure of PBP3 from P. aeruginosa
[[Category: Unreleased Structures]]
[[Category: Freischem, S]]
[[Category: Grimm, I]]
[[Category: Weiergraeber, O.H]]