2zfo - Revision history

OCA at 13:35, 1 November 2023

2023-11-01T13:35:17Z

←Older revision		Revision as of 13:35, 1 November 2023
Line 3:		Line 3:
	<StructureSection load='2zfo' size='340' side='right'caption='[[2zfo]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='2zfo' size='340' side='right'caption='[[2zfo]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zfo]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Oligobrachia_mashikoi Oligobrachia mashikoi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZFO OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2ZFO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zfo]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Oligobrachia_mashikoi Oligobrachia mashikoi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZFO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZFO FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</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]] 1.95Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2d2m\|2d2m]], [[2d2n\|2d2n]]~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=2zfo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zfo OCA], [~~http~~://pdbe.org/2zfo PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2zfo RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2zfo PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2zfo 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=2zfo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zfo OCA], [https://pdbe.org/2zfo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zfo RCSB], [https://www.ebi.ac.uk/pdbsum/2zfo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zfo ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/GLBB1_OLIMA GLBB1_OLIMA]] The extracellular giant hemoglobin is able to bind and transport oxygen and sulfide simultaneously and reversibly at two different sites. [[http://www.uniprot.org/uniprot/GLBA1_OLIMA GLBA1_OLIMA]] The extracellular giant hemoglobin is able to bind and transport oxygen and hydrosulfide simultaneously and reversibly at two different sites. [[http://www.uniprot.org/uniprot/GLBB2_OLIMA GLBB2_OLIMA]] The extracellular giant hemoglobin is able to bind and transport oxygen and hydrosulfide simultaneously and reversibly at two different sites. [[http://www.uniprot.org/uniprot/GLBA2_OLIMA GLBA2_OLIMA]] The extracellular giant hemoglobin is able to bind and transport oxygen and hydrosulfide simultaneously and reversibly at two different sites.	+	[https://www.uniprot.org/uniprot/GLBA1_OLIMA GLBA1_OLIMA] The extracellular giant hemoglobin is able to bind and transport oxygen and hydrosulfide simultaneously and reversibly at two different sites.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 38:		Line 38:
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Oligobrachia mashikoi]]		[[Category: Oligobrachia mashikoi]]
-	[[Category: Fukumori, Y]]	+	[[Category: Fukumori Y]]
-	[[Category: Kita, A]]	+	[[Category: Kita A]]
-	[[Category: Miki, K]]	+	[[Category: Miki K]]
-	[[Category: Nakagawa, T]]	+	[[Category: Nakagawa T]]
-	[[Category: Numoto, N]]	+	[[Category: Numoto N]]
-	[[Category: Sasayama, Y]]	+	[[Category: Sasayama Y]]
-	~~[[Category: Annelida]]~~	+
-	~~[[Category: Heme]]~~	+
-	~~[[Category: Hemoglobin]]~~	+
-	~~[[Category: Iron]]~~	+
-	~~[[Category: Metal-binding]]~~	+
-	~~[[Category: Oxygen binding]]~~	+
-	~~[[Category: Oxygen transport]]~~	+
-	~~[[Category: Polychaete]]~~	+
-	~~[[Category: Secreted]]~~	+
-	~~[[Category: Transport]]~~	+
-	~~[[Category: Transport protein]]~~	+
-	~~[[Category: Unliganded~~]]	+

OCA at 12:03, 29 July 2020

2020-07-29T12:03:48Z

←Older revision		Revision as of 12:03, 29 July 2020
Line 1:		Line 1:

	==Structure of the partially unliganded met state of 400 kDa hemoglobin: Insights into ligand-induced structural changes of giant hemoglobins==		==Structure of the partially unliganded met state of 400 kDa hemoglobin: Insights into ligand-induced structural changes of giant hemoglobins==
-	<StructureSection load='2zfo' size='340' side='right' caption='[[2zfo]], [[Resolution\|resolution]] 1.95Å' scene=''>	+	<StructureSection load='2zfo' size='340' side='right'caption='[[2zfo]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zfo]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Oligobrachia_mashikoi Oligobrachia mashikoi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZFO OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2ZFO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zfo]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Oligobrachia_mashikoi Oligobrachia mashikoi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZFO OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2ZFO FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2d2m\|2d2m]], [[2d2n\|2d2n]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2d2m\|2d2m]], [[2d2n\|2d2n]]</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=2zfo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zfo OCA], [http://pdbe.org/2zfo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zfo RCSB], [http://www.ebi.ac.uk/pdbsum/2zfo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2zfo ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2zfo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zfo OCA], [http://pdbe.org/2zfo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zfo RCSB], [http://www.ebi.ac.uk/pdbsum/2zfo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2zfo ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 36:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Oligobrachia mashikoi]]		[[Category: Oligobrachia mashikoi]]
	[[Category: Fukumori, Y]]		[[Category: Fukumori, Y]]

OCA at 07:39, 18 October 2018

2018-10-18T07:39:12Z

←Older revision		Revision as of 07:39, 18 October 2018
Line 14:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zf/2zfo_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zf/2zfo_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>

OCA at 21:08, 4 August 2016

2016-08-04T21:08:05Z

←Older revision		Revision as of 21:08, 4 August 2016
Line 1:		Line 1:
		+
	==Structure of the partially unliganded met state of 400 kDa hemoglobin: Insights into ligand-induced structural changes of giant hemoglobins==		==Structure of the partially unliganded met state of 400 kDa hemoglobin: Insights into ligand-induced structural changes of giant hemoglobins==
	<StructureSection load='2zfo' size='340' side='right' caption='[[2zfo]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='2zfo' size='340' side='right' caption='[[2zfo]], [[Resolution\|resolution]] 1.95Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2d2m\|2d2m]], [[2d2n\|2d2n]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2d2m\|2d2m]], [[2d2n\|2d2n]]</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=2zfo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zfo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zfo RCSB], [http://www.ebi.ac.uk/pdbsum/2zfo 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=2zfo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zfo OCA], [http://pdbe.org/2zfo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zfo RCSB], [http://www.ebi.ac.uk/pdbsum/2zfo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2zfo ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		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=2zfo ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 27:		Line 28:
	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 2zfo" style="background-color:#fffaf0;"></div>

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

OCA at 13:10, 25 December 2014

2014-12-25T13:10:03Z

←Older revision		Revision as of 13:10, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2zfo]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Oligobrachia_mashikoi Oligobrachia mashikoi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZFO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZFO FirstGlance]. <br>		<table><tr><td colspan='2'>[[2zfo]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Oligobrachia_mashikoi Oligobrachia mashikoi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZFO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZFO FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2d2m\|2d2m]], [[2d2n\|2d2n]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2d2m\|2d2m]], [[2d2n\|2d2n]]</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2zfo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zfo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zfo RCSB], [http://www.ebi.ac.uk/pdbsum/2zfo 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=2zfo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zfo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zfo RCSB], [http://www.ebi.ac.uk/pdbsum/2zfo PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/GLBB1_OLIMA GLBB1_OLIMA]] The extracellular giant hemoglobin is able to bind and transport oxygen and sulfide simultaneously and reversibly at two different sites. [[http://www.uniprot.org/uniprot/GLBA1_OLIMA GLBA1_OLIMA]] The extracellular giant hemoglobin is able to bind and transport oxygen and hydrosulfide simultaneously and reversibly at two different sites. [[http://www.uniprot.org/uniprot/GLBB2_OLIMA GLBB2_OLIMA]] The extracellular giant hemoglobin is able to bind and transport oxygen and hydrosulfide simultaneously and reversibly at two different sites. [[http://www.uniprot.org/uniprot/GLBA2_OLIMA GLBA2_OLIMA]] The extracellular giant hemoglobin is able to bind and transport oxygen and hydrosulfide simultaneously and reversibly at two different sites.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Oligobrachia mashikoi]]		[[Category: Oligobrachia mashikoi]]
-	[[Category: Fukumori, Y.]]	+	[[Category: Fukumori, Y]]
-	[[Category: Kita, A.]]	+	[[Category: Kita, A]]
-	[[Category: Miki, K.]]	+	[[Category: Miki, K]]
-	[[Category: Nakagawa, T.]]	+	[[Category: Nakagawa, T]]
-	[[Category: Numoto, N.]]	+	[[Category: Numoto, N]]
-	[[Category: Sasayama, Y.]]	+	[[Category: Sasayama, Y]]
	[[Category: Annelida]]		[[Category: Annelida]]
	[[Category: Heme]]		[[Category: Heme]]

OCA at 10:33, 29 September 2014

2014-09-29T10:33:42Z

←Older revision		Revision as of 10:33, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2zfo.~~png~~\|~~left~~\|200px]]	+	==Structure of the partially unliganded met state of 400 kDa hemoglobin: Insights into ligand-induced structural changes of giant hemoglobins==
		+	<StructureSection load='2zfo' size='340' side='right' caption='[[2zfo]], [[Resolution\|resolution]] 1.95Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2zfo]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Oligobrachia_mashikoi Oligobrachia mashikoi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZFO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZFO FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2d2m\|2d2m]], [[2d2n\|2d2n]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2zfo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zfo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zfo RCSB], [http://www.ebi.ac.uk/pdbsum/2zfo PDBsum]</span></td></tr>
		+	<table>
		+	== 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/zf/2zfo_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>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Recent crystallographic studies have revealed the structures of some invertebrate extracellular giant hemoglobins of 3,600 kDa or 400 kDa and their common quaternary structure of dodecameric subassembly composed of four kinds of globin subunits (A1, A2, B1, and B2). These results have provided insight into the mechanisms of their unique functional properties of oxygen binding and sulfide binding. All of these structures were solved with oxygenated or CO-liganded forms at low or moderate resolutions. We have determined the crystal structure of 400 kDa Hb from a polychaete Oligobrachia mashikoi at 1.95 A resolution. The electron densities at higher resolution confirm the existence of an isoform of the B1 subunit because of the inconsistency with the model that was built from the formerly known amino acid sequence. The brownish color of the crystals used in this study and the absorption spectrum from the dissolved crystals strongly indicated that the obtained structure was a ferric met state, whereas completele absence of electron density around the distal heme pockets were observed at the A2, B1, and B2 subunits. We concluded that the obtained structure was in unliganded met forms at three of four globin subunits in the 24mer assembly and in oxygenated forms at the remaining A1 subunits. The partially unliganded structure showed remarkable structural changes at the AB loop regions causing quaternary rearrangements of the EF-dimer structure. In contrast, few changes occurred at the interface regions composed of the E and F helices. These results suggest that the ligand-induced structural changes of Oligobrachia Hb are quite different from those of the well-studied mollusk Hb having the same EF-dimer structure. The structural rearrangements make the dodecameric subassembliy form a tighter conformation than those of fully oxygenated or CO-liganded dodecamer structure. Proteins 2008. (c) 2008 Wiley-Liss, Inc.

-	~~{{STRUCTURE_2zfo\| PDB=2zfo \| SCENE= }}~~	+	Structure of the partially unliganded met state of 400 kDa hemoglobin: Insights into ligand-induced structural changes of giant hemoglobins.,Numoto N, Nakagawa T, Kita A, Sasayama Y, Fukumori Y, Miki K Proteins. 2008 Apr 8;. PMID:18398907<ref>PMID:18398907</ref>

-	~~===Structure~~ of the ~~partially unliganded met state of 400 kDa hemoglobin: Insights into ligand-induced structural changes of giant hemoglobins===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18398907}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2zfo]] is a 4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Oligobrachia_mashikoi Oligobrachia mashikoi]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2ZFO OCA].~~	+

	==See Also==		==See Also==
-	*[[Hemoglobin\|Hemoglobin]]	+	*[[Hemoglobin 3D structures\|Hemoglobin 3D structures]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:018398907<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Oligobrachia mashikoi]]		[[Category: Oligobrachia mashikoi]]
	[[Category: Fukumori, Y.]]		[[Category: Fukumori, Y.]]

OCA at 17:04, 20 October 2012

2012-10-20T17:04:16Z

←Older revision		Revision as of 17:04, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2zfo]] is a 4 chain structure ~~of [[Hemoglobin]]~~ with sequence from [http://en.wikipedia.org/wiki/Oligobrachia_mashikoi Oligobrachia mashikoi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZFO OCA].	+	[[2zfo]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Oligobrachia_mashikoi Oligobrachia mashikoi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZFO OCA].

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

OCA: Protected "2zfo" [edit=sysop:move=sysop]

2012-07-26T23:44:09Z

Protected "2zfo" [edit=sysop:move=sysop]

←Older revision

Revision as of 23:44, 26 July 2012

OCA at 23:44, 26 July 2012

2012-07-26T23:44:08Z

←Older revision		Revision as of 23:44, 26 July 2012
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-	{{Seed}}
	[[Image:2zfo.png\|left\|200px]]		[[Image:2zfo.png\|left\|200px]]

-	<!--
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	{{STRUCTURE_2zfo\| PDB=2zfo \| SCENE= }}		{{STRUCTURE_2zfo\| PDB=2zfo \| SCENE= }}

	===Structure of the partially unliganded met state of 400 kDa hemoglobin: Insights into ligand-induced structural changes of giant hemoglobins===		===Structure of the partially unliganded met state of 400 kDa hemoglobin: Insights into ligand-induced structural changes of giant hemoglobins===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18398907}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18398907 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_18398907}}		{{ABSTRACT_PUBMED_18398907}}

	==About this Structure==		==About this Structure==
-	~~2ZFO~~ is a 4 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/Oligobrachia_mashikoi Oligobrachia mashikoi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZFO OCA].	+	[[2zfo]] is a 4 chain structure of [[Hemoglobin]] with sequence from [http://en.wikipedia.org/wiki/Oligobrachia_mashikoi Oligobrachia mashikoi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZFO OCA].
		+
		+	==See Also==
		+	*[[Hemoglobin\|Hemoglobin]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18398907~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018398907</ref><references group="xtra"/>
	[[Category: Oligobrachia mashikoi]]		[[Category: Oligobrachia mashikoi]]
	[[Category: Fukumori, Y.]]		[[Category: Fukumori, Y.]]
Line 43:		Line 34:
	[[Category: Transport protein]]		[[Category: Transport protein]]
	[[Category: Unliganded]]		[[Category: Unliganded]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 17:03:24 2009''

OCA at 15:03, 17 February 2009

2009-02-17T15:03:26Z

←Older revision		Revision as of 15:03, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2ZFO is a ~~[[Protein complex]]~~ structure of sequences from [http://en.wikipedia.org/wiki/Oligobrachia_mashikoi Oligobrachia mashikoi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZFO OCA].	+	2ZFO is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Oligobrachia_mashikoi Oligobrachia mashikoi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZFO OCA].

	==Reference==		==Reference==
-	Structure of the partially unliganded met state of 400 kDa hemoglobin: Insights into ligand-induced structural changes of giant hemoglobins., Numoto N, Nakagawa T, Kita A, Sasayama Y, Fukumori Y, Miki K, Proteins. 2008 Apr 8;. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18398907 18398907]~~	+	<ref group="xtra">PMID:18398907</ref><references group="xtra"/>
	[[Category: Oligobrachia mashikoi]]		[[Category: Oligobrachia mashikoi]]
-	[[Category: Protein complex]]
	[[Category: Fukumori, Y.]]		[[Category: Fukumori, Y.]]
	[[Category: Kita, A.]]		[[Category: Kita, A.]]
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	[[Category: Unliganded]]		[[Category: Unliganded]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Jul 28 23~~:53:~~50 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 17:03:24 2009''