4n9r - Revision history

OCA at 16:50, 20 September 2023

OCA — Wed, 20 Sep 2023 16:50:26 GMT

←Older revision		Revision as of 16:50, 20 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4n9r]] 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=4N9R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4N9R FirstGlance]. <br>		<table><tr><td colspan='2'>[[4n9r]] 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=4N9R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4N9R FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=2T8:CARBONYL(TETRACHLORO)OXIDOIRIDIUM'>2T8</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=2T8:CARBONYL(TETRACHLORO)OXIDOIRIDIUM'>2T8</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=4n9r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n9r OCA], [https://pdbe.org/4n9r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4n9r RCSB], [https://www.ebi.ac.uk/pdbsum/4n9r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4n9r 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=4n9r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n9r OCA], [https://pdbe.org/4n9r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4n9r RCSB], [https://www.ebi.ac.uk/pdbsum/4n9r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4n9r ProSAT]</span></td></tr>
	</table>		</table>

OCA at 08:16, 11 January 2023

OCA — Wed, 11 Jan 2023 08:16:16 GMT

←Older revision		Revision as of 08:16, 11 January 2023
Line 3:		Line 3:
	<StructureSection load='4n9r' size='340' side='right'caption='[[4n9r]], [[Resolution\|resolution]] 1.55Å' scene=''>		<StructureSection load='4n9r' size='340' side='right'caption='[[4n9r]], [[Resolution\|resolution]] 1.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4n9r]] 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=4N9R OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4N9R FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4n9r]] 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=4N9R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4N9R FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=2T8:CARBONYL(TETRACHLORO)OXIDOIRIDIUM'>2T8</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene~~></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=2T8:CARBONYL(TETRACHLORO)OXIDOIRIDIUM'>2T8</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4lfp\|4lfp]], [[4lfx\|4lfx]]</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=4n9r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n9r OCA], [https://pdbe.org/4n9r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4n9r RCSB], [https://www.ebi.ac.uk/pdbsum/4n9r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4n9r ProSAT]</span></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=4n9r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n9r OCA], [~~http~~://pdbe.org/4n9r PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4n9r RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4n9r PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4n9r 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 ==
Line 26:		Line 24:
	[[Category: Gallus gallus]]		[[Category: Gallus gallus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Lysozyme]]~~	+	[[Category: Bikiel DE]]
-	[[Category: Bikiel~~, D E~~]]	+	[[Category: Merlino A]]
-	[[Category: Merlino, A]]	+	[[Category: Petruk AA]]
-	[[Category: Petruk~~, A A~~]]	+	[[Category: Vergara A]]
-	[[Category: Vergara, A]]	+
-	~~[[Category: C-type lysozyme/alpha-lactalbumin family]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 08:36, 10 April 2019

OCA — Wed, 10 Apr 2019 08:36:39 GMT

←Older revision		Revision as of 08:36, 10 April 2019
Line 1:		Line 1:
		+
	==X-ray structure of the complex between hen egg white lysozyme and pentacholrocarbonyliridate(III) (1 day)==		==X-ray structure of the complex between hen egg white lysozyme and pentacholrocarbonyliridate(III) (1 day)==
-	<StructureSection load='4n9r' size='340' side='right' caption='[[4n9r]], [[Resolution\|resolution]] 1.55Å' scene=''>	+	<StructureSection load='4n9r' size='340' side='right'caption='[[4n9r]], [[Resolution\|resolution]] 1.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4n9r]] 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=4N9R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4N9R FirstGlance]. <br>		<table><tr><td colspan='2'>[[4n9r]] 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=4N9R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4N9R FirstGlance]. <br>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4lfp\|4lfp]], [[4lfx\|4lfx]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4lfp\|4lfp]], [[4lfx\|4lfx]]</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='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=4n9r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n9r OCA], [http://pdbe.org/4n9r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4n9r RCSB], [http://www.ebi.ac.uk/pdbsum/4n9r 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=4n9r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n9r OCA], [http://pdbe.org/4n9r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4n9r RCSB], [http://www.ebi.ac.uk/pdbsum/4n9r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4n9r ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 24:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: Gallus gallus]]		[[Category: Gallus gallus]]
		+	[[Category: Large Structures]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]
	[[Category: Bikiel, D E]]		[[Category: Bikiel, D E]]

OCA at 19:32, 30 December 2015

OCA — Wed, 30 Dec 2015 19:32:44 GMT

←Older revision		Revision as of 19:32, 30 December 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==X-ray structure of the complex between hen egg white lysozyme and pentacholrocarbonyliridate(III) (1 day)==
		+	<StructureSection load='4n9r' size='340' side='right' caption='[[4n9r]], [[Resolution\|resolution]] 1.55Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4n9r]] 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=4N9R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4N9R FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=2T8:CARBONYL(TETRACHLORO)OXIDOIRIDIUM'>2T8</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4lfp\|4lfp]], [[4lfx\|4lfx]]</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=4n9r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4n9r OCA], [http://pdbe.org/4n9r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4n9r RCSB], [http://www.ebi.ac.uk/pdbsum/4n9r PDBsum]</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 ==
		+	Carbon monoxide releasing molecules (CORMs) have important bactericidal, anti-inflammatory, neuroprotective, and antiapoptotic effects and can be used as tools for CO physiology experiments, including studies on vasodilation. In this context, a new class of CO releasing molecules, based on pentachlorocarbonyliridate(III) derivative have been recently reported. Although there is a growing interest in the characterization of protein-CORMs interactions, only limited structural information on CORM binding to protein and CO release has been available to date. Here, we report six different crystal structures describing events ranging from CORM entrance into the protein crystal up to the CO release and a biophysical characterization by isothermal titration calorimetry, Raman microspectroscopy, and molecular dynamics simulations of the complex between a pentachlorocarbonyliridate(III) derivative and hen egg white lysozyme, a model protein. Altogether, the data indicate the formation of a complex in which the ligand can bind to different sites of the protein surface and provide clues on the mechanism of adduct formation and CO release.

-	~~The entry 4n9r is ON HOLD until sometime in the future~~	+	Interaction between proteins and Ir based CO releasing molecules: mechanism of adduct formation and CO release.,Petruk AA, Vergara A, Marasco D, Bikiel D, Doctorovich F, Estrin DA, Merlino A Inorg Chem. 2014 Oct 6;53(19):10456-62. doi: 10.1021/ic501498g. Epub 2014 Sep 12. PMID:25215611<ref>PMID:25215611</ref>

-	~~Authors: Petruk~~, A.A.~~, Bikiel, D.E., Vergara, A., Merlino, A~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description: X~~-~~ray structure of the complex between hen egg white lysozyme and pentacholrocarbonyliridate(III) (1 day)~~	+	<div class="pdbe-citations 4n9r" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
-	[[Category: Bikiel, D.E]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Gallus gallus]]
		+	[[Category: Lysozyme]]
		+	[[Category: Bikiel, D E]]
		+	[[Category: Merlino, A]]
		+	[[Category: Petruk, A A]]
	[[Category: Vergara, A]]		[[Category: Vergara, A]]
-	[[Category: ~~Merlino, A~~]]	+	[[Category: C-type lysozyme/alpha-lactalbumin family]]
-	[[Category: ~~Petruk, A.A~~]]	+	[[Category: Hydrolase]]

OCA at 14:11, 24 December 2014

OCA — Wed, 24 Dec 2014 14:11:12 GMT

←Older revision		Revision as of 14:11, 24 December 2014
Line 6:		Line 6:

	Description: X-ray structure of the complex between hen egg white lysozyme and pentacholrocarbonyliridate(III) (1 day)		Description: X-ray structure of the complex between hen egg white lysozyme and pentacholrocarbonyliridate(III) (1 day)
		+	[[Category: Unreleased Structures]]
		+	[[Category: Bikiel, D.E]]
		+	[[Category: Vergara, A]]
		+	[[Category: Merlino, A]]
		+	[[Category: Petruk, A.A]]

OCA at 07:46, 24 September 2014

OCA — Wed, 24 Sep 2014 07:46:37 GMT

←Older revision		Revision as of 07:46, 24 September 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4n9r is ON HOLD	+	The entry 4n9r is ON HOLD until sometime in the future

	Authors: Petruk, A.A., Bikiel, D.E., Vergara, A., Merlino, A.		Authors: Petruk, A.A., Bikiel, D.E., Vergara, A., Merlino, A.

	Description: X-ray structure of the complex between hen egg white lysozyme and pentacholrocarbonyliridate(III) (1 day)		Description: X-ray structure of the complex between hen egg white lysozyme and pentacholrocarbonyliridate(III) (1 day)

OCA at 10:15, 5 February 2014

OCA — Wed, 05 Feb 2014 10:15:51 GMT

←Older revision		Revision as of 10:15, 5 February 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4n9r is ON HOLD ~~until sometime in the future~~	+	The entry 4n9r is ON HOLD

	Authors: Petruk, A.A., Bikiel, D.E., Vergara, A., Merlino, A.		Authors: Petruk, A.A., Bikiel, D.E., Vergara, A., Merlino, A.

	Description: X-ray structure of the complex between hen egg white lysozyme and pentacholrocarbonyliridate(III) (1 day)		Description: X-ray structure of the complex between hen egg white lysozyme and pentacholrocarbonyliridate(III) (1 day)

OCA at 07:41, 13 November 2013

OCA — Wed, 13 Nov 2013 07:41:45 GMT

←Older revision		Revision as of 07:41, 13 November 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4n9r is ON HOLD	+	The entry 4n9r is ON HOLD until sometime in the future

	Authors: Petruk, A.A., Bikiel, D.E., Vergara, A., Merlino, A.		Authors: Petruk, A.A., Bikiel, D.E., Vergara, A., Merlino, A.

	Description: X-ray structure of the complex between hen egg white lysozyme and pentacholrocarbonyliridate(III) (1 day)		Description: X-ray structure of the complex between hen egg white lysozyme and pentacholrocarbonyliridate(III) (1 day)

OCA: Protected "4n9r" [edit=sysop:move=sysop]

OCA — Wed, 06 Nov 2013 07:05:11 GMT

Protected "4n9r" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:05, 6 November 2013

OCA: New page: '''Unreleased structure''' The entry 4n9r is ON HOLD Authors: Petruk, A.A., Bikiel, D.E., Vergara, A., Merlino, A. Description: X-ray structure of the complex between hen egg white lys...

OCA — Wed, 06 Nov 2013 07:05:10 GMT

New page: '''Unreleased structure''' The entry 4n9r is ON HOLD Authors: Petruk, A.A., Bikiel, D.E., Vergara, A., Merlino, A. Description: X-ray structure of the complex between hen egg white lys...

New page

'''Unreleased structure'''

The entry 4n9r is ON HOLD

Authors: Petruk, A.A., Bikiel, D.E., Vergara, A., Merlino, A.

Description: X-ray structure of the complex between hen egg white lysozyme and pentacholrocarbonyliridate(III) (1 day)