5iqk - Revision history

OCA at 14:06, 30 August 2023

OCA — Wed, 30 Aug 2023 14:06:19 GMT

←Older revision		Revision as of 14:06, 30 August 2023
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	<StructureSection load='5iqk' size='340' side='right'caption='[[5iqk]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='5iqk' size='340' side='right'caption='[[5iqk]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5iqk]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IQK OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5IQK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5iqk]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Uncultured_bacterium Uncultured bacterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IQK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5IQK FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 1.75Å</td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[http://en.wikipedia.org/wiki/Beta-lactamase Beta-lactamase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.2.6 3.5.2.6]~~ </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5iqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iqk OCA], [~~http~~://pdbe.org/5iqk PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5iqk RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5iqk PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5iqk 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=5iqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iqk OCA], [https://pdbe.org/5iqk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5iqk RCSB], [https://www.ebi.ac.uk/pdbsum/5iqk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5iqk ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A059Q5E8_9BACT A0A059Q5E8_9BACT]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Beta-lactamase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Salimraj, R~~]]	+	[[Category: Uncultured bacterium]]
-	[[Category: ~~Spencer, J~~]]	+	[[Category: Salimraj R]]
-	[[Category: ~~Antibiotic resistance]]~~	+	[[Category: Spencer J]]
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Lactamase]]~~	+
-	~~[[Category: Metagenomic]]~~	+
-	~~[[Category: Metallo~~]]	+

OCA at 07:28, 3 June 2020

OCA — Wed, 03 Jun 2020 07:28:00 GMT

←Older revision		Revision as of 07:28, 3 June 2020
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	==Rm3 metallo-beta-lactamase==		==Rm3 metallo-beta-lactamase==
-	<StructureSection load='5iqk' size='340' side='right' caption='[[5iqk]], [[Resolution\|resolution]] 1.75Å' scene=''>	+	<StructureSection load='5iqk' size='340' side='right'caption='[[5iqk]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5iqk]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IQK OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5IQK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5iqk]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IQK OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5IQK FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-lactamase Beta-lactamase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.2.6 3.5.2.6] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-lactamase Beta-lactamase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.2.6 3.5.2.6] </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=5iqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iqk OCA], [http://pdbe.org/5iqk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5iqk RCSB], [http://www.ebi.ac.uk/pdbsum/5iqk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5iqk ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5iqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iqk OCA], [http://pdbe.org/5iqk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5iqk RCSB], [http://www.ebi.ac.uk/pdbsum/5iqk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5iqk ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 19:		Line 19:

	==See Also==		==See Also==
-	*[[Beta-lactamase\|Beta-lactamase]]	+	*[[Beta-lactamase 3D structures\|Beta-lactamase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Beta-lactamase]]		[[Category: Beta-lactamase]]
		+	[[Category: Large Structures]]
	[[Category: Salimraj, R]]		[[Category: Salimraj, R]]
	[[Category: Spencer, J]]		[[Category: Spencer, J]]

OCA at 10:52, 13 September 2017

OCA — Wed, 13 Sep 2017 10:52:50 GMT

←Older revision		Revision as of 10:52, 13 September 2017
Line 17:		Line 17:
	</div>		</div>
	<div class="pdbe-citations 5iqk" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5iqk" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Beta-lactamase\|Beta-lactamase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 08:05, 27 July 2016

OCA — Wed, 27 Jul 2016 08:05:11 GMT

←Older revision		Revision as of 08:05, 27 July 2016
Line 6:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-lactamase Beta-lactamase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.2.6 3.5.2.6] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-lactamase Beta-lactamase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.2.6 3.5.2.6] </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=5iqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iqk OCA], [http://pdbe.org/5iqk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5iqk RCSB], [http://www.ebi.ac.uk/pdbsum/5iqk 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=5iqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iqk OCA], [http://pdbe.org/5iqk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5iqk RCSB], [http://www.ebi.ac.uk/pdbsum/5iqk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5iqk ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	beta-Lactamase production increasingly threatens the effectiveness of beta-lactams, which remain a mainstay of antimicrobial chemotherapy. New activities emerge both through mutation of previously known beta-lactamases and mobilization from environmental reservoirs. The spread of metallo-beta-lactamases (MBLs) represents a particular challenge through their typically broad spectrum activities, encompassing carbapenems in addition to other beta-lactam classes. Increasingly, genomic and metagenomic studies reveal distribution of putative MBLs in the environment, but in most cases their activity against clinically relevant beta-lactams, and hence the extent to which they can be considered a resistance reservoir, remains uncharacterized. Here we characterize the product of one such gene, blaRm3, identified through functional metagenomic sampling of an environment with high biocide exposure. blaRm3 encodes a subclass B3 MBL that, when expressed in recombinant E. coli, is exported to the bacterial periplasm and hydrolyzes clinically used penicillins, cephalosporins, and carbapenems with an efficiency limited by high KM values. An Rm3 crystal structure reveals the MBL superfamily alphabeta/betaalpha fold, which more closely resembles mobilized B3 MBLs (AIM-1, SMB-1) than other chromosomal enzymes (L1 or FEZ-1). A binuclear zinc site sits in a deep channel that is in part defined by a relatively extended N-terminus. Structural comparisons suggest that the steric constraints imposed by the N-terminus may limit beta-lactam affinity. Sequence comparisons identify Rm3-like MBLs in numerous other environmental samples and species. Our data suggest that Rm3 like enzymes represent a distinct group of B3 MBLs with a wide distribution and can be considered as an environmental reservoir of beta-lactam resistance.
		+
		+	Structural and Biochemical Characterization of Rm3, a SubClass B3 Metallo-beta-Lactamase Identified from a Functional Metagenomic Study.,Salimraj R, Zhang L, Hinchliffe P, Wellington EM, Brem J, Schofield CJ, Gaze WH, Spencer J Antimicrob Agents Chemother. 2016 Jul 18. pii: AAC.00750-16. PMID:27431213<ref>PMID:27431213</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5iqk" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

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

OCA — Wed, 11 May 2016 13:08:31 GMT

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

←Older revision

Revision as of 13:08, 11 May 2016

OCA: New page: ==Rm3 metallo-beta-lactamase== == Structural highlights ==
OCA — Wed, 11 May 2016 13:08:26 GMT

New page: ==Rm3 metallo-beta-lactamase== <StructureSection load='5iqk' size='340' side='right' caption='5iqk, resolution 1.75Å' scene=''> == Structural highlights == <table...

New page

==Rm3 metallo-beta-lactamase==
<StructureSection load='5iqk' size='340' side='right' caption='[[5iqk]], [[Resolution|resolution]] 1.75Å' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[5iqk]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IQK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5IQK FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-lactamase Beta-lactamase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.2.6 3.5.2.6] </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=5iqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5iqk OCA], [http://pdbe.org/5iqk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5iqk RCSB], [http://www.ebi.ac.uk/pdbsum/5iqk PDBsum]</span></td></tr>
</table>
TOC
</StructureSection>
[[Category: Beta-lactamase]]
[[Category: Salimraj, R]]
[[Category: Spencer, J]]
[[Category: Antibiotic resistance]]
[[Category: Hydrolase]]
[[Category: Lactamase]]
[[Category: Metagenomic]]
[[Category: Metallo]]