6qea - Revision history

OCA at 11:58, 24 January 2024

2024-01-24T11:58:41Z

←Older revision		Revision as of 11:58, 24 January 2024
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	<StructureSection load='6qea' size='340' side='right'caption='[[6qea]], [[Resolution\|resolution]] 1.96Å' scene=''>		<StructureSection load='6qea' size='340' side='right'caption='[[6qea]], [[Resolution\|resolution]] 1.96Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6qea]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QEA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6QEA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6qea]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QEA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6QEA FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=J9H:pentacoordinate+Pt(II)+compound'>J9H</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</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]] 1.96Å</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </span></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=J9H:pentacoordinate+Pt(II)+compound'>J9H</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</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=6qea FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qea OCA], [~~http~~://pdbe.org/6qea PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6qea RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6qea PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6qea 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=6qea FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qea OCA], [https://pdbe.org/6qea PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6qea RCSB], [https://www.ebi.ac.uk/pdbsum/6qea PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6qea ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/LYSC_CHICK LYSC_CHICK]] Lysozymes have primarily a bacteriolytic function; those in tissues and body fluids are associated with the monocyte-macrophage system and enhance the activity of immunoagents. Has bacteriolytic activity against M.luteus.<ref>PMID:22044478</ref>	+	[https://www.uniprot.org/uniprot/LYSC_CHICK LYSC_CHICK] Lysozymes have primarily a bacteriolytic function; those in tissues and body fluids are associated with the monocyte-macrophage system and enhance the activity of immunoagents. Has bacteriolytic activity against M.luteus.<ref>PMID:22044478</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 6qea" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6qea" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Lysozyme 3D structures\|Lysozyme 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	[[Category: Gallus gallus]]		[[Category: Gallus gallus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Lysozyme]]~~	+	[[Category: Ferraro G]]
-	[[Category: Ferraro, G]]	+	[[Category: Merlino A]]
-	[[Category: Merlino, A]]	+
-	~~[[Category: Anticancer platinum compound]]~~	+
-	~~[[Category: Five-coordinate pt complex]]~~	+
-	~~[[Category: Lyase]]~~	+
-	~~[[Category: Protein metal coordination~~]]	+

OCA at 06:48, 27 March 2019

2019-03-27T06:48:29Z

←Older revision		Revision as of 06:48, 27 March 2019
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-	'''Unreleased structure'''

-	The ~~entry~~ 6qea is ~~ON HOLD~~	+	==The X-ray structure of the adduct formed in the reaction between hen egg white lysozyme and complex I, a pentacoordinate Pt(II) compound containing 2,9-dimethyl-1,10-phenanthroline, dimethylfumarate, methyl and iodine as ligands==
		+	<StructureSection load='6qea' size='340' side='right'caption='[[6qea]], [[Resolution\|resolution]] 1.96Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6qea]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QEA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6QEA FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=J9H:pentacoordinate+Pt(II)+compound'>J9H</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </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=6qea FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qea OCA], [http://pdbe.org/6qea PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qea RCSB], [http://www.ebi.ac.uk/pdbsum/6qea PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qea ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/LYSC_CHICK LYSC_CHICK]] Lysozymes have primarily a bacteriolytic function; those in tissues and body fluids are associated with the monocyte-macrophage system and enhance the activity of immunoagents. Has bacteriolytic activity against M.luteus.<ref>PMID:22044478</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Stable five-coordinate Pt(II) complexes have been highlighted as a promising and original platform for the development of new cytotoxic drugs. Their interaction with proteins has been scarcely studied. Here, the reactivity of the five-coordinate Pt(II) compound [Pt(I)(Me) (dmphen)(olefin)] (Me = methyl, dmphen = 2,9-dimethyl-1,10-phenanthroline, olefin = dimethylfumarate) with the model proteins hen egg white lysozyme (HEWL) and bovine pancreatic ribonuclease (RNase A) has been investigated by X-ray crystallography and electrospray ionization mass spectrometry. The X-ray structures of the adducts of RNase A and HEWL with [Pt(I)(Me)(dmphen)(olefin)] are not of very high quality, but overall data indicate that, upon reaction with RNase A, the compound coordinates the side chain of His105 upon releasing the iodide ligand, but retains the pentacoordination. On the contrary, upon reaction with HEWL, the trigonal bi-pyramidal Pt geometry is lost, the iodide and the olefin ligands are released, and the metal center coordinates the side chain of His15 probably adopting a nearly square-planar geometry. This work underlines the importance of the combined use of crystallographic and mass spectrometry techniques to characterize, in detail, the protein(-)metallodrug recognition process. Our findings also suggest that five-coordinate Pt(II) complexes can act either retaining their uncommon structure or functioning as prodrugs, i.e., releasing square-planar platinum complexes as bioactive species.

-	~~Authors: Merlino, A~~., Ferraro, G.	+	Reaction with Proteins of a Five-Coordinate Platinum(II) Compound.,Ferraro G, Marzo T, Cucciolito ME, Ruffo F, Messori L, Merlino A Int J Mol Sci. 2019 Jan 26;20(3). pii: ijms20030520. doi: 10.3390/ijms20030520. PMID:30691130<ref>PMID:30691130</ref>

-	~~Description: The X-ray structure of the adduct formed in the reaction between hen egg white lysozyme and complex I~~, a ~~pentacoordinate Pt(II) compound containing 2,9~~-~~dimethyl~~-~~1,10-phenanthroline, dimethylfumarate, methyl and iodine as ligands~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6qea" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Gallus gallus]]
		+	[[Category: Large Structures]]
		+	[[Category: Lysozyme]]
	[[Category: Ferraro, G]]		[[Category: Ferraro, G]]
	[[Category: Merlino, A]]		[[Category: Merlino, A]]
		+	[[Category: Anticancer platinum compound]]
		+	[[Category: Five-coordinate pt complex]]
		+	[[Category: Lyase]]
		+	[[Category: Protein metal coordination]]

OCA at 06:05, 20 March 2019

2019-03-20T06:05:05Z

←Older revision		Revision as of 06:05, 20 March 2019
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6qea is ON HOLD ~~until sometime in the future~~	+	The entry 6qea is ON HOLD

	Authors: Merlino, A., Ferraro, G.		Authors: Merlino, A., Ferraro, G.

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

2019-01-16T10:48:18Z

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

←Older revision

Revision as of 10:48, 16 January 2019

OCA: New page: '''Unreleased structure''' The entry 6qea is ON HOLD until sometime in the future Authors: Merlino, A., Ferraro, G. Description: The X-ray structure of the adduct formed in the reactio...

2019-01-16T10:48:17Z

New page: '''Unreleased structure''' The entry 6qea is ON HOLD until sometime in the future Authors: Merlino, A., Ferraro, G. Description: The X-ray structure of the adduct formed in the reactio...

New page

'''Unreleased structure'''

The entry 6qea is ON HOLD until sometime in the future

Authors: Merlino, A., Ferraro, G.

Description: The X-ray structure of the adduct formed in the reaction between hen egg white lysozyme and complex I, a pentacoordinate Pt(II) compound containing 2,9-dimethyl-1,10-phenanthroline, dimethylfumarate, methyl and iodine as ligands
[[Category: Unreleased Structures]]
[[Category: Ferraro, G]]
[[Category: Merlino, A]]