3gk9 - Revision history

OCA at 15:41, 1 November 2023

2023-11-01T15:41:16Z

←Older revision		Revision as of 15:41, 1 November 2023
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	<StructureSection load='3gk9' size='340' side='right'caption='[[3gk9]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='3gk9' size='340' side='right'caption='[[3gk9]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3gk9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Lk3_transgenic_mice Lk3 transgenic mice~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GK9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GK9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3gk9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GK9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GK9 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>~~, ~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=XE:XENON'>XE</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]] 1.8Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[3gkt\|3gkt]], [[3gln\|3gln]]~~</~~div~~><~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=XE:XENON'>XE</scene></td></tr>
-	<~~tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">Ngb ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])~~</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=3gk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gk9 OCA], [https://pdbe.org/3gk9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3gk9 RCSB], [https://www.ebi.ac.uk/pdbsum/3gk9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3gk9 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=3gk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gk9 OCA], [https://pdbe.org/3gk9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3gk9 RCSB], [https://www.ebi.ac.uk/pdbsum/3gk9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3gk9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/NGB_MOUSE NGB_MOUSE]] Involved in oxygen transport in the brain. Hexacoordinate globin, displaying competitive binding of oxygen or the distal His residue to the iron atom. Not capable of penetrating cell membranes. The deoxygenated form exhibits nitrite reductase activity inhibiting cellular respiration via NO-binding to cytochrome c oxidase. Involved in neuroprotection during oxidative stress. May exert its anti-apoptotic activity by acting to reset the trigger level of mitochondrial cytochrome c release necessary to commit the cells to apoptosis.<ref>PMID:11473111</ref> <ref>PMID:11473128</ref>	+	[https://www.uniprot.org/uniprot/NGB_MOUSE NGB_MOUSE] Involved in oxygen transport in the brain. Hexacoordinate globin, displaying competitive binding of oxygen or the distal His residue to the iron atom. Not capable of penetrating cell membranes. The deoxygenated form exhibits nitrite reductase activity inhibiting cellular respiration via NO-binding to cytochrome c oxidase. Involved in neuroprotection during oxidative stress. May exert its anti-apoptotic activity by acting to reset the trigger level of mitochondrial cytochrome c release necessary to commit the cells to apoptosis.<ref>PMID:11473111</ref> <ref>PMID:11473128</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Lk3 transgenic mice~~]]	+	[[Category: Mus musculus]]
-	[[Category: Brunori, M]]	+	[[Category: Brunori M]]
-	[[Category: Moschetti, T]]	+	[[Category: Moschetti T]]
-	[[Category: Mueller, U]]	+	[[Category: Mueller U]]
-	[[Category: Schultze, J]]	+	[[Category: Schultze J]]
-	[[Category: Vallone, B]]	+	[[Category: Vallone B]]
-	~~[[Category: Globin fold]]~~	+
-	~~[[Category: Heme]]~~	+
-	~~[[Category: Iron]]~~	+
-	~~[[Category: Metal-binding]]~~	+
-	~~[[Category: Oxygen storage-transport protein complex]]~~	+
-	~~[[Category: Oxygen transport]]~~	+
-	~~[[Category: Transport]]~~	+
-	~~[[Category: Xenon site~~]]	+

OCA at 07:42, 10 November 2021

2021-11-10T07:42:02Z

←Older revision		Revision as of 07:42, 10 November 2021
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	==Crystal structure of murine Ngb under Xe pressure==		==Crystal structure of murine Ngb under Xe pressure==
-	<StructureSection load='3gk9' size='340' side='right' caption='[[3gk9]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='3gk9' size='340' side='right'caption='[[3gk9]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3gk9]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GK9 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3GK9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3gk9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GK9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GK9 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=XE:XENON'>XE</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=XE:XENON'>XE</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3gkt\|3gkt]], [[3gln\|3gln]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3gkt\|3gkt]], [[3gln\|3gln]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Ngb ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Ngb ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</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=3gk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gk9 OCA], [~~http~~://pdbe.org/3gk9 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3gk9 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3gk9 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3gk9 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=3gk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gk9 OCA], [https://pdbe.org/3gk9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3gk9 RCSB], [https://www.ebi.ac.uk/pdbsum/3gk9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3gk9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/NGB_MOUSE NGB_MOUSE]] Involved in oxygen transport in the brain. Hexacoordinate globin, displaying competitive binding of oxygen or the distal His residue to the iron atom. Not capable of penetrating cell membranes. The deoxygenated form exhibits nitrite reductase activity inhibiting cellular respiration via NO-binding to cytochrome c oxidase. Involved in neuroprotection during oxidative stress. May exert its anti-apoptotic activity by acting to reset the trigger level of mitochondrial cytochrome c release necessary to commit the cells to apoptosis.<ref>PMID:11473111</ref> <ref>PMID:11473128</ref>	+	[[https://www.uniprot.org/uniprot/NGB_MOUSE NGB_MOUSE]] Involved in oxygen transport in the brain. Hexacoordinate globin, displaying competitive binding of oxygen or the distal His residue to the iron atom. Not capable of penetrating cell membranes. The deoxygenated form exhibits nitrite reductase activity inhibiting cellular respiration via NO-binding to cytochrome c oxidase. Involved in neuroprotection during oxidative stress. May exert its anti-apoptotic activity by acting to reset the trigger level of mitochondrial cytochrome c release necessary to commit the cells to apoptosis.<ref>PMID:11473111</ref> <ref>PMID:11473128</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Lk3 transgenic mice]]		[[Category: Lk3 transgenic mice]]
	[[Category: Brunori, M]]		[[Category: Brunori, M]]

OCA at 08:16, 17 October 2018

2018-10-17T08:16:40Z

←Older revision		Revision as of 08:16, 17 October 2018
Line 1:		Line 1:
		+
	==Crystal structure of murine Ngb under Xe pressure==		==Crystal structure of murine Ngb under Xe pressure==
	<StructureSection load='3gk9' size='340' side='right' caption='[[3gk9]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='3gk9' size='340' side='right' caption='[[3gk9]], [[Resolution\|resolution]] 1.80Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3gkt\|3gkt]], [[3gln\|3gln]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3gkt\|3gkt]], [[3gln\|3gln]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Ngb ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Ngb ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</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=3gk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gk9 OCA], [http://pdbe.org/3gk9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3gk9 RCSB], [http://www.ebi.ac.uk/pdbsum/3gk9 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=3gk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gk9 OCA], [http://pdbe.org/3gk9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3gk9 RCSB], [http://www.ebi.ac.uk/pdbsum/3gk9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3gk9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gk/3gk9_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gk/3gk9_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 20:		Line 21:
	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3gk9 ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3gk9 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Neuroglobin (Ngb) is a hexacoordinate globin expressed in the brain of vertebrates. Ferrous Ngb binds dioxygen with high affinity and the O(2) adduct is able to scavenge NO. Convincing in vitro and in vivo data indicate that Ngb is involved in neuroprotection during hypoxia and ischemia. The 3D structure of Ngb reveals the presence of a wide internal cavity connecting its heme active site with the bulk. To explore the role of this "tunnel" in the control of ligand binding, we determined the structure of metNgb and NgbCO equilibrated with Xe or Kr. We show four docking sites for Xe (only two for Kr); two of the four Xe sites are within the large cavity. They are only partially conserved in globins, since the two proximal Xe sites identified in myoglobin (Xe1 and Xe2) are absent in Ngb, as well as in cytoglobin. The Xe docking sites in Ngb map a pathway within the protein matrix, leading to the heme, which becomes more accessible in the ligand-bound species. This may be of significance in connection with the redox chemistry that may be the primary function of this hexacoordinate globin.
		+
		+	The structure of neuroglobin at high Xe and Kr pressure reveals partial conservation of globin internal cavities.,Moschetti T, Mueller U, Schulze J, Brunori M, Vallone B Biophys J. 2009 Sep 16;97(6):1700-8. doi: 10.1016/j.bpj.2009.05.059. PMID:19751675<ref>PMID:19751675</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 3gk9" style="background-color:#fffaf0;"></div>

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

OCA at 14:59, 9 February 2016

2016-02-09T14:59:58Z

←Older revision		Revision as of 14:59, 9 February 2016
Line 2:		Line 2:
	<StructureSection load='3gk9' size='340' side='right' caption='[[3gk9]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='3gk9' size='340' side='right' caption='[[3gk9]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3gk9]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Mus_musculus Mus musculus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GK9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GK9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3gk9]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GK9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GK9 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=XE:XENON'>XE</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=XE:XENON'>XE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3gkt\|3gkt]], [[3gln\|3gln]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3gkt\|3gkt]], [[3gln\|3gln]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Ngb ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 ~~Mus musculus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Ngb ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</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=3gk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gk9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3gk9 RCSB], [http://www.ebi.ac.uk/pdbsum/3gk9 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=3gk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gk9 OCA], [http://pdbe.org/3gk9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3gk9 RCSB], [http://www.ebi.ac.uk/pdbsum/3gk9 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 18:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3gk9 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>

Line 27:		Line 27:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Mus musculus~~]]	+	[[Category: Lk3 transgenic mice]]
	[[Category: Brunori, M]]		[[Category: Brunori, M]]
	[[Category: Moschetti, T]]		[[Category: Moschetti, T]]

OCA at 07:33, 25 December 2014

2014-12-25T07:33:08Z

←Older revision		Revision as of 07:33, 25 December 2014
Line 1:		Line 1:
-	~~[[Image:3gk9.png\|left\|200px]]~~	+	==Crystal structure of murine Ngb under Xe pressure==
-		+	<StructureSection load='3gk9' size='340' side='right' caption='[[3gk9]], [[Resolution\|resolution]] 1.80Å' scene=''>
-	~~{{STRUCTURE_3gk9\| PDB=3gk9 \| SCENE= }}~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[3gk9]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GK9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GK9 FirstGlance]. <br>
-	===Crystal structure of murine Ngb under Xe pressure===	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=XE:XENON'>XE</scene></td></tr>
-		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3gkt\|3gkt]], [[3gln\|3gln]]</td></tr>
-		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Ngb ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</td></tr>
-	==~~About this Structure~~==	+	<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=3gk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gk9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3gk9 RCSB], [http://www.ebi.ac.uk/pdbsum/3gk9 PDBsum]</span></td></tr>
-	[[3gk9]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GK9 OCA].	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/NGB_MOUSE NGB_MOUSE]] Involved in oxygen transport in the brain. Hexacoordinate globin, displaying competitive binding of oxygen or the distal His residue to the iron atom. Not capable of penetrating cell membranes. The deoxygenated form exhibits nitrite reductase activity inhibiting cellular respiration via NO-binding to cytochrome c oxidase. Involved in neuroprotection during oxidative stress. May exert its anti-apoptotic activity by acting to reset the trigger level of mitochondrial cytochrome c release necessary to commit the cells to apoptosis.<ref>PMID:11473111</ref> <ref>PMID:11473128</ref>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gk/3gk9_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>

	==See Also==		==See Also==
	*[[Neuroglobin\|Neuroglobin]]		*[[Neuroglobin\|Neuroglobin]]
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
-	[[Category: Brunori, M.]]	+	[[Category: Brunori, M]]
-	[[Category: Moschetti, T.]]	+	[[Category: Moschetti, T]]
-	[[Category: Mueller, U.]]	+	[[Category: Mueller, U]]
-	[[Category: Schultze, J.]]	+	[[Category: Schultze, J]]
-	[[Category: Vallone, B.]]	+	[[Category: Vallone, B]]
	[[Category: Globin fold]]		[[Category: Globin fold]]
	[[Category: Heme]]		[[Category: Heme]]

OCA at 14:14, 20 October 2012

2012-10-20T14:14:08Z

←Older revision		Revision as of 14:14, 20 October 2012
Line 7:		Line 7:

	==About this Structure==		==About this Structure==
-	[[3gk9]] is a 1 chain structure ~~of [[Neuroglobin]]~~ with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GK9 OCA].	+	[[3gk9]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GK9 OCA].

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

OCA: Protected "3gk9" [edit=sysop:move=sysop]

2012-07-26T14:30:22Z

Protected "3gk9" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:30, 26 July 2012

OCA at 14:30, 26 July 2012

2012-07-26T14:30:19Z

←Older revision		Revision as of 14:30, 26 July 2012
Line 1:		Line 1:
-	~~{{Seed}}~~	+	[[Image:3gk9.png\|left\|200px]]
-	[[Image:3gk9.~~jpg~~\|left\|200px]]	+

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3gk9", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_3gk9\| PDB=3gk9 \| SCENE= }}		{{STRUCTURE_3gk9\| PDB=3gk9 \| SCENE= }}

Line 14:		Line 7:

	==About this Structure==		==About this Structure==
-	~~3GK9~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GK9 OCA].	+	[[3gk9]] is a 1 chain structure of [[Neuroglobin]] with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GK9 OCA].
		+
		+	==See Also==
		+	*[[Neuroglobin\|Neuroglobin]]
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: Brunori, M.]]		[[Category: Brunori, M.]]
Line 25:		Line 21:
	[[Category: Iron]]		[[Category: Iron]]
	[[Category: Metal-binding]]		[[Category: Metal-binding]]
-	[[Category: Oxygen storage/transport protein complex]]	+	[[Category: Oxygen storage-transport protein complex]]
	[[Category: Oxygen transport]]		[[Category: Oxygen transport]]
	[[Category: Transport]]		[[Category: Transport]]
	[[Category: Xenon site]]		[[Category: Xenon site]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 23 08:56:16 2009''

OCA at 05:56, 23 September 2009

2009-09-23T05:56:17Z

←Older revision		Revision as of 05:56, 23 September 2009
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3gk9.jpg\|left\|200px]]

-	The ~~entry 3gk9~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3gk9", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_3gk9\| PDB=3gk9 \| SCENE= }}

-	~~Authors: Moschetti, T., Mueller, U., Schultze, J., Brunori, M., Vallone, B.~~	+	===Crystal structure of murine Ngb under Xe pressure===

-	Description: Crystal structure of murine Ngb under Xe pressure

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Mar 25 12~~:16:38 2009''	+	==About this Structure==
		+	3GK9 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GK9 OCA].
		+	[[Category: Mus musculus]]
		+	[[Category: Brunori, M.]]
		+	[[Category: Moschetti, T.]]
		+	[[Category: Mueller, U.]]
		+	[[Category: Schultze, J.]]
		+	[[Category: Vallone, B.]]
		+	[[Category: Globin fold]]
		+	[[Category: Heme]]
		+	[[Category: Iron]]
		+	[[Category: Metal-binding]]
		+	[[Category: Oxygen storage/transport protein complex]]
		+	[[Category: Oxygen transport]]
		+	[[Category: Transport]]
		+	[[Category: Xenon site]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 23 08:56:16 2009''

OCA: New page: '''Unreleased structure''' The entry 3gk9 is ON HOLD until Paper Publication Authors: Moschetti, T., Mueller, U., Schultze, J., Brunori, M., Vallone, B. Description: Crystal structure ...

2009-03-25T10:16:39Z

New page: '''Unreleased structure''' The entry 3gk9 is ON HOLD until Paper Publication Authors: Moschetti, T., Mueller, U., Schultze, J., Brunori, M., Vallone, B. Description: Crystal structure ...

New page

'''Unreleased structure'''

The entry 3gk9 is ON HOLD until Paper Publication

Authors: Moschetti, T., Mueller, U., Schultze, J., Brunori, M., Vallone, B.

Description: Crystal structure of murine Ngb under Xe pressure

''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 25 12:16:38 2009''