4uwr - Revision history

OCA at 10:37, 10 January 2024

2024-01-10T10:37:45Z

←Older revision		Revision as of 10:37, 10 January 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4uwr]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Klebsiella_pneumoniae Klebsiella pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UWR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4UWR FirstGlance]. <br>		<table><tr><td colspan='2'>[[4uwr]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Klebsiella_pneumoniae Klebsiella pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UWR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4UWR FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</scene>, <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]] 1.55Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</scene>, <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'>[https://proteopedia.org/fgij/fg.htm?mol=4uwr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uwr OCA], [https://pdbe.org/4uwr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4uwr RCSB], [https://www.ebi.ac.uk/pdbsum/4uwr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4uwr 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=4uwr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uwr OCA], [https://pdbe.org/4uwr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4uwr RCSB], [https://www.ebi.ac.uk/pdbsum/4uwr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4uwr ProSAT]</span></td></tr>
	</table>		</table>

OCA at 07:48, 29 March 2023

2023-03-29T07:48:10Z

←Older revision		Revision as of 07:48, 29 March 2023
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	<StructureSection load='4uwr' size='340' side='right'caption='[[4uwr]], [[Resolution\|resolution]] 1.55Å' scene=''>		<StructureSection load='4uwr' size='340' side='right'caption='[[4uwr]], [[Resolution\|resolution]] 1.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4uwr]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_pneumoniae"_(schroeter_1886)_flugge_1886 "bacillus~~ pneumoniae~~" (schroeter 1886) flugge 1886~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UWR OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4UWR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4uwr]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Klebsiella_pneumoniae Klebsiella pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UWR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4UWR FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <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=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</scene>, <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=~~OCS~~:~~CYSTEINESULFONIC~~+~~ACID~~'>~~OCS~~</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=4uwr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uwr OCA], [https://pdbe.org/4uwr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4uwr RCSB], [https://www.ebi.ac.uk/pdbsum/4uwr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4uwr ProSAT]</span></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4uwo\|4uwo]], [[4uwp\|4uwp]], [[4uws\|4uws]]~~</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=4uwr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uwr OCA], [~~http~~://pdbe.org/4uwr PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4uwr RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4uwr PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4uwr ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/E5BDC6_KLEPN E5BDC6_KLEPN]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 25:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Klebsiella pneumoniae]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bjerga~~, G E.K~~]]	+	[[Category: Bjerga GEK]]
-	[[Category: Edvardsen~~, K S.W~~]]	+	[[Category: Edvardsen KSW]]
-	[[Category: Leiros, H ~~K.S~~]]	+	[[Category: Leiros H-KS]]
-	[[Category: Samuelsen, O]]	+	[[Category: Samuelsen O]]
-	~~[[Category: Antibiotic resistance]]~~	+
-	~~[[Category: Drug binding site]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 09:02, 23 May 2019

2019-05-23T09:02:08Z

←Older revision		Revision as of 09:02, 23 May 2019
Line 1:		Line 1:

	==Mono-zinc VIM-26. Leu224 in VIM-26 from Klebsiella pneumoniae has implications for drug binding.==		==Mono-zinc VIM-26. Leu224 in VIM-26 from Klebsiella pneumoniae has implications for drug binding.==
-	<StructureSection load='4uwr' size='340' side='right' caption='[[4uwr]], [[Resolution\|resolution]] 1.55Å' scene=''>	+	<StructureSection load='4uwr' size='340' side='right'caption='[[4uwr]], [[Resolution\|resolution]] 1.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4uwr]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UWR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UWR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4uwr]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_pneumoniae"_(schroeter_1886)_flugge_1886 "bacillus pneumoniae" (schroeter 1886) flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UWR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UWR FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <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=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <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=OCS:CYSTEINESULFONIC+ACID'>OCS</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</scene></td></tr>
Line 20:		Line 20:

	==See Also==		==See Also==
-	*[[Beta-lactamase\|Beta-lactamase]]	+	*[[Beta-lactamase 3D structures\|Beta-lactamase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Bjerga, G E.K]]		[[Category: Bjerga, G E.K]]
	[[Category: Edvardsen, K S.W]]		[[Category: Edvardsen, K S.W]]

OCA at 01:19, 19 January 2017

2017-01-19T01:19:27Z

←Older revision		Revision as of 01:19, 19 January 2017
Line 1:		Line 1:
		+
	==Mono-zinc VIM-26. Leu224 in VIM-26 from Klebsiella pneumoniae has implications for drug binding.==		==Mono-zinc VIM-26. Leu224 in VIM-26 from Klebsiella pneumoniae has implications for drug binding.==
	<StructureSection load='4uwr' size='340' side='right' caption='[[4uwr]], [[Resolution\|resolution]] 1.55Å' scene=''>		<StructureSection load='4uwr' size='340' side='right' caption='[[4uwr]], [[Resolution\|resolution]] 1.55Å' scene=''>
Line 6:		Line 7:
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4uwo\|4uwo]], [[4uwp\|4uwp]], [[4uws\|4uws]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4uwo\|4uwo]], [[4uwp\|4uwp]], [[4uws\|4uws]]</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=4uwr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uwr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4uwr RCSB], [http://www.ebi.ac.uk/pdbsum/4uwr 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=4uwr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uwr OCA], [http://pdbe.org/4uwr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4uwr RCSB], [http://www.ebi.ac.uk/pdbsum/4uwr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4uwr 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 4uwr" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==

OCA at 06:53, 15 April 2015

2015-04-15T06:53:06Z

←Older revision		Revision as of 06:53, 15 April 2015
Line 16:		Line 16:
	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>
		+
		+	==See Also==
		+	*[[Beta-lactamase\|Beta-lactamase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 15:45, 7 February 2015

2015-02-07T15:45:54Z

←Older revision		Revision as of 15:45, 7 February 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Mono-zinc VIM-26. Leu224 in VIM-26 from Klebsiella pneumoniae has implications for drug binding.==
		+	<StructureSection load='4uwr' size='340' side='right' caption='[[4uwr]], [[Resolution\|resolution]] 1.55Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4uwr]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UWR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UWR FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <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=OCS:CYSTEINESULFONIC+ACID'>OCS</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4uwo\|4uwo]], [[4uwp\|4uwp]], [[4uws\|4uws]]</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=4uwr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uwr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4uwr RCSB], [http://www.ebi.ac.uk/pdbsum/4uwr PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	During the last decades antimicrobial resistance has become a global health problem. Metallo-beta-lactamases (MBLs) which are broad-spectrum beta-lactamases that inactivate virtually all beta-lactams including carbapenems, are contributing to this health problem. In this study a novel MBL variant, termed VIM-26, identified in a Klebsiella pneumoniae isolate was studied. VIM-26 belongs to the Verona integron-encoded metallo-beta-lactamase (VIM) family of MBLs and is a His224Leu variant of the well-characterized VIM-1 variant. In this study, we report the kinetic parameters, minimum inhibitory concentrations and crystal structures of a recombinant VIM-26 protein, and compare them to previously published data on VIM-1, VIM-2 and VIM-7. The kinetic parameters and minimum inhibitory concentration determinations show that VIM-26, like VIM-7, has higher penicillinase activity but lower cephalosporinase activity than VIM-1 and VIM-2. The four determined VIM-26 crystal structures revealed mono- and di-zinc forms, where the Zn1 ion has distorted tetrahedral coordination geometry with an additional water molecule (W2) at a distance of 2.6-3.7 A, which could be important during catalysis. The R2 drug binding site in VIM-26 is more open compared to VIM-2 and VIM-7 and neutrally charged due to Leu224 and Ser228. Thus, the VIM-26 drug binding properties are different from the VIM-2 (Tyr224/Arg228) and VIM-7 (His224/Arg228) structures, indicating a role of these residues in the substrate specificity.

-	~~The entry 4uwr is ON HOLD until Paper Publication~~	+	Structural and biochemical characterization of VIM-26 shows that Leu224 has implications for the substrate specificity of VIM metallo-beta-lactamases.,Leiros HK, Edvardsen KS, Bjerga GE, Samuelsen O FEBS J. 2015 Jan 19. doi: 10.1111/febs.13200. PMID:25601024<ref>PMID:25601024</ref>

-	~~Authors: Leiros~~, ~~H.-K~~.S.~~, Edvardsen, K~~.~~S.W.,~~ Bjerga, G.E.K~~., Samuelsen, O.~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~Mono-zinc VIM-26. Leu224 in VIM-26 from Klebsiella pneumoniae has implications for drug binding~~.	+	== References ==
-	[[Category: ~~Unreleased Structures~~]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Bjerga, G E.K]]
		+	[[Category: Edvardsen, K S.W]]
		+	[[Category: Leiros, H K.S]]
	[[Category: Samuelsen, O]]		[[Category: Samuelsen, O]]
-	[[Category: ~~Leiros, H.-K.S~~]]	+	[[Category: Antibiotic resistance]]
-	[[Category: ~~Edvardsen, K.S.W~~]]	+	[[Category: Drug binding site]]
-	[[Category: ~~Bjerga, G.E.K~~]]	+	[[Category: Hydrolase]]

OCA at 18:49, 24 December 2014

2014-12-24T18:49:03Z

←Older revision		Revision as of 18:49, 24 December 2014
Line 6:		Line 6:

	Description: Mono-zinc VIM-26. Leu224 in VIM-26 from Klebsiella pneumoniae has implications for drug binding.		Description: Mono-zinc VIM-26. Leu224 in VIM-26 from Klebsiella pneumoniae has implications for drug binding.
		+	[[Category: Unreleased Structures]]
		+	[[Category: Samuelsen, O]]
		+	[[Category: Leiros, H.-K.S]]
		+	[[Category: Edvardsen, K.S.W]]
		+	[[Category: Bjerga, G.E.K]]

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

2014-08-20T15:15:01Z

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

←Older revision

Revision as of 15:15, 20 August 2014

OCA: New page: '''Unreleased structure''' The entry 4uwr is ON HOLD until Paper Publication Authors: Leiros, H.-K.S., Edvardsen, K.S.W., Bjerga, G.E.K., Samuelsen, O. Description: Mono-zinc VIM-26. L...

2014-08-20T15:14:59Z

New page: '''Unreleased structure''' The entry 4uwr is ON HOLD until Paper Publication Authors: Leiros, H.-K.S., Edvardsen, K.S.W., Bjerga, G.E.K., Samuelsen, O. Description: Mono-zinc VIM-26. L...

New page

'''Unreleased structure'''

The entry 4uwr is ON HOLD until Paper Publication

Authors: Leiros, H.-K.S., Edvardsen, K.S.W., Bjerga, G.E.K., Samuelsen, O.

Description: Mono-zinc VIM-26. Leu224 in VIM-26 from Klebsiella pneumoniae has implications for drug binding.