OCA at 06:00, 17 April 2019

OCA — Wed, 17 Apr 2019 06:00:47 GMT

←Older revision		Revision as of 06:00, 17 April 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6jkw is ~~ON HOLD~~	+	==Seleno-methionine PNGM-1 from deep-sea sediment metagenome==
		+	<StructureSection load='6jkw' size='340' side='right'caption='[[6jkw]], [[Resolution\|resolution]] 2.29Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6jkw]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JKW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6JKW 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='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</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=6jkw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jkw OCA], [http://pdbe.org/6jkw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6jkw RCSB], [http://www.ebi.ac.uk/pdbsum/6jkw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6jkw ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	OBJECTIVES: In order to find antimicrobial resistance gene(s) pre-dating the use of antibiotics through metagenomics, functional screening of a metagenomic library from the deep-seep sediments of Edison Seamount (ca. 10000 years old) was performed. METHODS: Among 60 antimicrobial-resistant clones, a single clone with the highest minimum inhibitory concentration (MIC) for ampicillin was selected. Sequence analysis revealed a new metallo-beta-lactamase (MBL) gene, designated as blaPNGM-1. PNGM-1 retains a zinc ion-binding motif (H116XH118XD120H121, H196 and H263), conserved in subclass B3 MBLs. The catalytic parameters of purified PNGM-1 and the MICs of beta-lactams for Escherichia coli TOP10 transformants harbouring the blaPNGM-1 gene were assessed. RESULTS: Antimicrobial susceptibility testing indicated reduced susceptibility to penicillins, narrow- and extended-spectrum cephalosporins, and carbapenems in E. coli TOP10 transformants harbouring the blaPNGM-1 gene. In addition, kinetic analyses revealed that PNGM-1 hydrolysed almost all beta-lactams. CONCLUSIONS: The PNGM-1 enzyme is the first case of a subclass B3 MBL derived from a functional metagenomic library of a deep-sea sediment that pre-dates the antibiotic era.

-	~~Authors: Hong~~, ~~M.K~~., Park, ~~K.S.~~, Jeon, ~~J.H.~~, Lee, J.H.~~, Park, Y~~.S.~~, Lee, S~~.H., ~~Kang, L.W~~.	+	PNGM-1, a novel subclass B3 metallo-beta-lactamase from a deep-sea sediment metagenome.,Park KS, Kim TY, Kim JH, Lee JH, Jeon JH, Karim AM, Malik SK, Lee SH J Glob Antimicrob Resist. 2018 Sep;14:302-305. doi: 10.1016/j.jgar.2018.05.021., Epub 2018 May 26. PMID:29842976<ref>PMID:29842976</ref>

-	~~Description: Seleno~~-~~methionine PNGM~~-~~1 from deep-sea sediment metagenome~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
-	[[Category: ~~Park~~, K.S]]	+	<div class="pdbe-citations 6jkw" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Lee~~, J.H]]	+	== References ==
-	[[Category: ~~Hong~~, ~~M.K~~]]	+	<references/>
-	[[Category: ~~Jeon~~, J.H]]	+	__TOC__
-	[[Category: ~~Park~~, Y.S]]	+	</StructureSection>
-	[[Category: ~~Lee~~, S.H]]	+	[[Category: Large Structures]]
-	[[Category: ~~Kang~~, ~~L.W~~]]	+	[[Category: Hong, M K]]
		+	[[Category: Jeon, J H]]
		+	[[Category: Kang, L W]]
		+	[[Category: Lee, J H]]
		+	[[Category: Lee, S H]]
		+	[[Category: Park, K S]]
		+	[[Category: Park, Y S]]
		+	[[Category: Antibiotic resistance]]
		+	[[Category: Mbl]]
		+	[[Category: Metagenome]]
		+	[[Category: Psi-biology]]
		+	[[Category: Structural genomic]]
		+	[[Category: Transferase]]
		+	[[Category: Zinc binding motif]]

OCA at 05:18, 10 April 2019

OCA — Wed, 10 Apr 2019 05:18:56 GMT

←Older revision		Revision as of 05:18, 10 April 2019
Line 5:		Line 5:
	Authors: Hong, M.K., Park, K.S., Jeon, J.H., Lee, J.H., Park, Y.S., Lee, S.H., Kang, L.W.		Authors: Hong, M.K., Park, K.S., Jeon, J.H., Lee, J.H., Park, Y.S., Lee, S.H., Kang, L.W.

-	Description: ~~apo structure of UDP~~-~~glucose pyrophosphorylase~~ from ~~Acinetobacter baumanii~~	+	Description: Seleno-methionine PNGM-1 from deep-sea sediment metagenome
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Hong, M.K]]
-	[[Category: Lee, S.H]]
-	[[Category: Kang, L.W]]
	[[Category: Park, K.S]]		[[Category: Park, K.S]]
	[[Category: Lee, J.H]]		[[Category: Lee, J.H]]
		+	[[Category: Hong, M.K]]
	[[Category: Jeon, J.H]]		[[Category: Jeon, J.H]]
	[[Category: Park, Y.S]]		[[Category: Park, Y.S]]
		+	[[Category: Lee, S.H]]
		+	[[Category: Kang, L.W]]

OCA: Protected "6jkw" [edit=sysop:move=sysop]

OCA — Wed, 13 Mar 2019 10:01:17 GMT

Protected "6jkw" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:01, 13 March 2019

OCA: New page: '''Unreleased structure''' The entry 6jkw is ON HOLD Authors: Hong, M.K., Park, K.S., Jeon, J.H., Lee, J.H., Park, Y.S., Lee, S.H., Kang, L.W. Description: apo structure of UDP-glucose...

OCA — Wed, 13 Mar 2019 10:01:15 GMT

New page: '''Unreleased structure''' The entry 6jkw is ON HOLD Authors: Hong, M.K., Park, K.S., Jeon, J.H., Lee, J.H., Park, Y.S., Lee, S.H., Kang, L.W. Description: apo structure of UDP-glucose...

New page

'''Unreleased structure'''

The entry 6jkw is ON HOLD

Authors: Hong, M.K., Park, K.S., Jeon, J.H., Lee, J.H., Park, Y.S., Lee, S.H., Kang, L.W.

Description: apo structure of UDP-glucose pyrophosphorylase from Acinetobacter baumanii
[[Category: Unreleased Structures]]
[[Category: Hong, M.K]]
[[Category: Lee, S.H]]
[[Category: Kang, L.W]]
[[Category: Park, K.S]]
[[Category: Lee, J.H]]
[[Category: Jeon, J.H]]
[[Category: Park, Y.S]]

6jkw - Revision history

OCA at 06:00, 17 April 2019

OCA at 05:18, 10 April 2019

OCA: Protected "6jkw" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 6jkw is ON HOLD Authors: Hong, M.K., Park, K.S., Jeon, J.H., Lee, J.H., Park, Y.S., Lee, S.H., Kang, L.W. Description: apo structure of UDP-glucose...