2peg - Revision history

OCA at 07:45, 9 October 2024

2024-10-09T07:45:12Z

← Older revision		Revision as of 07:45, 9 October 2024
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	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pe/2peg_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pe/2peg_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/~~initialview01~~.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>

OCA at 10:59, 30 August 2023

2023-08-30T10:59:51Z

← Older revision		Revision as of 10:59, 30 August 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2peg]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Trematomus_bernacchii Trematomus bernacchii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PEG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PEG FirstGlance]. <br>		<table><tr><td colspan='2'>[[2peg]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Trematomus_bernacchii Trematomus bernacchii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PEG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PEG 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>~~</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]] 1.48Å</td></tr>
	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene><~~/td></tr>~~		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene></td></tr>
	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;~~'>~~[[1la6\|1la6]], [[1s5y\|1s5y]], [[1s5x\|1s5x]]~~</~~div~~></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=2peg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2peg OCA], [https://pdbe.org/2peg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2peg RCSB], [https://www.ebi.ac.uk/pdbsum/2peg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2peg 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=2peg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2peg OCA], [https://pdbe.org/2peg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2peg RCSB], [https://www.ebi.ac.uk/pdbsum/2peg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2peg ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/HBA_TREBE HBA_TREBE~~]] Involved in oxygen transport from gills to the various peripheral tissues. [[https://www.uniprot.org/uniprot/HBB_TREBE HBB_TREBE]~~] Involved in oxygen transport from gills to the various peripheral tissues.		[https://www.uniprot.org/uniprot/HBA_TREBE HBA_TREBE] Involved in oxygen transport from gills to the various peripheral tissues.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Trematomus bernacchii]]		[[Category: Trematomus bernacchii]]
	[[Category: Franzese, M]]		[[Category: Franzese M]]
	[[Category: Mazzarella, L]]		[[Category: Mazzarella L]]
	[[Category: Merlino, A]]		[[Category: Merlino A]]
	[[Category: Vergara, A]]		[[Category: Vergara A]]
	[[Category: Vitagliano, L]]		[[Category: Vitagliano L]]
	~~[[Category: Hemichrome]]~~
	~~[[Category: Oxygen storage-transport complex]]~~
	~~[[Category: R/tintermediate quaternary structure~~]]

OCA at 15:22, 17 June 2021

2021-06-17T15:22:11Z

← Older revision		Revision as of 15:22, 17 June 2021
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	<StructureSection load='2peg' size='340' side='right'caption='[[2peg]], [[Resolution\|resolution]] 1.48Å' scene=''>		<StructureSection load='2peg' size='340' side='right'caption='[[2peg]], [[Resolution\|resolution]] 1.48Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2peg]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Trematomus_bernacchii Trematomus bernacchii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PEG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2PEG FirstGlance]. <br>		<table><tr><td colspan='2'>[[2peg]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Trematomus_bernacchii Trematomus bernacchii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PEG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PEG 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></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></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1la6\|1la6]], [[1s5y\|1s5y]], [[1s5x\|1s5x]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1la6\|1la6]], [[1s5y\|1s5y]], [[1s5x\|1s5x]]</div></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=2peg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2peg OCA], [~~http~~://pdbe.org/2peg PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2peg RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2peg PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2peg 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=2peg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2peg OCA], [https://pdbe.org/2peg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2peg RCSB], [https://www.ebi.ac.uk/pdbsum/2peg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2peg ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/HBA_TREBE HBA_TREBE]] Involved in oxygen transport from gills to the various peripheral tissues. [[~~http~~://www.uniprot.org/uniprot/HBB_TREBE HBB_TREBE]] Involved in oxygen transport from gills to the various peripheral tissues.		[[https://www.uniprot.org/uniprot/HBA_TREBE HBA_TREBE]] Involved in oxygen transport from gills to the various peripheral tissues. [[https://www.uniprot.org/uniprot/HBB_TREBE HBB_TREBE]] Involved in oxygen transport from gills to the various peripheral tissues.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 07:26, 24 July 2019

2019-07-24T07:26:29Z

← Older revision		Revision as of 07:26, 24 July 2019
Line 1:		Line 1:

	==Crystal structure of Trematomus bernacchii hemoglobin in a partial hemichrome state==		==Crystal structure of Trematomus bernacchii hemoglobin in a partial hemichrome state==
	<StructureSection load='2peg' size='340' side='right' caption='[[2peg]], [[Resolution\|resolution]] 1.48Å' scene=''>		<StructureSection load='2peg' size='340' side='right'caption='[[2peg]], [[Resolution\|resolution]] 1.48Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2peg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Emerald_rockcod Emerald rockcod~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PEG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PEG FirstGlance]. <br>		<table><tr><td colspan='2'>[[2peg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Trematomus_bernacchii Trematomus bernacchii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PEG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PEG 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></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></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
Line 15:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pe/2peg_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pe/2peg_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 37:		Line 37:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Emerald rockcod~~]]		[[Category: Large Structures]]
			[[Category: Trematomus bernacchii]]
	[[Category: Franzese, M]]		[[Category: Franzese, M]]
	[[Category: Mazzarella, L]]		[[Category: Mazzarella, L]]

OCA at 09:24, 18 October 2017

2017-10-18T09:24:01Z

← Older revision		Revision as of 09:24, 18 October 2017
Line 1:		Line 1:

	==Crystal structure of Trematomus bernacchii hemoglobin in a partial hemichrome state==		==Crystal structure of Trematomus bernacchii hemoglobin in a partial hemichrome state==
	<StructureSection load='2peg' size='340' side='right' caption='[[2peg]], [[Resolution\|resolution]] 1.48Å' scene=''>		<StructureSection load='2peg' size='340' side='right' caption='[[2peg]], [[Resolution\|resolution]] 1.48Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2peg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Trematomus_bernacchii Trematomus bernacchii~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PEG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PEG FirstGlance]. <br>		<table><tr><td colspan='2'>[[2peg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Emerald_rockcod Emerald rockcod]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PEG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PEG 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></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></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1la6\|1la6]], [[1s5y\|1s5y]], [[1s5x\|1s5x]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1la6\|1la6]], [[1s5y\|1s5y]], [[1s5x\|1s5x]]</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=2peg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2peg OCA], [http://pdbe.org/2peg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2peg RCSB], [http://www.ebi.ac.uk/pdbsum/2peg 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=2peg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2peg OCA], [http://pdbe.org/2peg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2peg RCSB], [http://www.ebi.ac.uk/pdbsum/2peg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2peg ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Trematomus bernacchii~~]]		[[Category: Emerald rockcod]]
	[[Category: Franzese, M]]		[[Category: Franzese, M]]
	[[Category: Mazzarella, L]]		[[Category: Mazzarella, L]]

OCA at 00:57, 10 February 2016

2016-02-10T00:57:29Z

← Older revision		Revision as of 00:57, 10 February 2016
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=2peg ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 03:46, 11 September 2015

2015-09-11T03:46:23Z

← Older revision		Revision as of 03:46, 11 September 2015
Line 6:		Line 6:
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1la6\|1la6]], [[1s5y\|1s5y]], [[1s5x\|1s5x]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1la6\|1la6]], [[1s5y\|1s5y]], [[1s5x\|1s5x]]</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=2peg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2peg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2peg RCSB], [http://www.ebi.ac.uk/pdbsum/2peg 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=2peg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2peg OCA], [http://pdbe.org/2peg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2peg RCSB], [http://www.ebi.ac.uk/pdbsum/2peg PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/~~HBA_PAGBE HBA_PAGBE~~]] Involved in oxygen transport from gills to the various peripheral tissues. [[http://www.uniprot.org/uniprot/~~HBB_PAGBE HBB_PAGBE~~]] Involved in oxygen transport from gills to the various peripheral tissues.		[[http://www.uniprot.org/uniprot/HBA_TREBE HBA_TREBE]] Involved in oxygen transport from gills to the various peripheral tissues. [[http://www.uniprot.org/uniprot/HBB_TREBE HBB_TREBE]] Involved in oxygen transport from gills to the various peripheral tissues.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 28:		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 2peg" style="background-color:#fffaf0;"></div>

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

OCA at 10:40, 25 December 2014

2014-12-25T10:40:34Z

← Older revision		Revision as of 10:40, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2peg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Trematomus_bernacchii Trematomus bernacchii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PEG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PEG FirstGlance]. <br>		<table><tr><td colspan='2'>[[2peg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Trematomus_bernacchii Trematomus bernacchii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PEG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PEG FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene><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></td></tr>
	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1la6\|1la6]], [[1s5y\|1s5y]], [[1s5x\|1s5x]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1la6\|1la6]], [[1s5y\|1s5y]], [[1s5x\|1s5x]]</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=2peg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2peg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2peg RCSB], [http://www.ebi.ac.uk/pdbsum/2peg 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=2peg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2peg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2peg RCSB], [http://www.ebi.ac.uk/pdbsum/2peg PDBsum]</span></td></tr>
	<table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/HBA_PAGBE HBA_PAGBE]] Involved in oxygen transport from gills to the various peripheral tissues. [[http://www.uniprot.org/uniprot/HBB_PAGBE HBB_PAGBE]] Involved in oxygen transport from gills to the various peripheral tissues.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Trematomus bernacchii]]		[[Category: Trematomus bernacchii]]
	[[Category: Franzese, M.]]		[[Category: Franzese, M]]
	[[Category: Mazzarella, L.]]		[[Category: Mazzarella, L]]
	[[Category: Merlino, A.]]		[[Category: Merlino, A]]
	[[Category: Vergara, A.]]		[[Category: Vergara, A]]
	[[Category: Vitagliano, L.]]		[[Category: Vitagliano, L]]
	[[Category: Hemichrome]]		[[Category: Hemichrome]]
	[[Category: Oxygen storage-transport complex]]		[[Category: Oxygen storage-transport complex]]
	[[Category: R/tintermediate quaternary structure]]		[[Category: R/tintermediate quaternary structure]]

OCA at 09:33, 29 September 2014

2014-09-29T09:33:34Z

← Older revision		Revision as of 09:33, 29 September 2014
Line 1:		Line 1:
	[[Image:~~2peg~~.~~png~~\|~~left~~\|~~200px~~]]		==Crystal structure of Trematomus bernacchii hemoglobin in a partial hemichrome state==
			<StructureSection load='2peg' size='340' side='right' caption='[[2peg]], [[Resolution\|resolution]] 1.48Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[2peg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Trematomus_bernacchii Trematomus bernacchii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PEG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PEG FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene><br>
			<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1la6\|1la6]], [[1s5y\|1s5y]], [[1s5x\|1s5x]]</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=2peg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2peg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2peg RCSB], [http://www.ebi.ac.uk/pdbsum/2peg 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/pe/2peg_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 ==
			Spontaneous autoxidation of tetrameric Hbs leads to the formation of Fe (III) forms, whose physiological role is not fully understood. Here we report structural characterization by EPR of the oxidized states of tetrameric Hbs isolated from the Antarctic fish species Trematomus bernacchii, Trematomus newnesi, and Gymnodraco acuticeps, as well as the x-ray crystal structure of oxidized Trematomus bernacchii Hb, redetermined at high resolution. The oxidation of these Hbs leads to formation of states that were not usually detected in previous analyses of tetrameric Hbs. In addition to the commonly found aquo-met and hydroxy-met species, EPR analyses show that two distinct hemichromes coexist at physiological pH, referred to as hemichromes I and II, respectively. Together with the high-resolution crystal structure (1.5 A) of T. bernacchii and a survey of data available for other heme proteins, hemichrome I was assigned by x-ray crystallography and by EPR as a bis-His complex with a distorted geometry, whereas hemichrome II is a less constrained (cytochrome b5-like) bis-His complex. In four of the five Antartic fish Hbs examined, hemichrome I is the major form. EPR shows that for HbCTn, the amount of hemichrome I is substantially reduced. In addition, the concomitant presence of a penta-coordinated high-spin Fe (III) species, to our knowledge never reported before for a wild-type tetrameric Hb, was detected. A molecular modeling investigation demonstrates that the presence of the bulkier Ile in position 67beta in HbCTn in place of Val as in the other four Hbs impairs the formation of hemichrome I, thus favoring the formation of the ferric penta-coordinated species. Altogether the data show that ferric states commonly associated with monomeric and dimeric Hbs are also found in tetrameric Hbs.

	~~{{STRUCTURE_2peg\| PDB=2peg \| SCENE= }}~~		Structural characterization of ferric hemoglobins from three antarctic fish species of the suborder notothenioidei.,Vergara A, Franzese M, Merlino A, Vitagliano L, Verde C, di Prisco G, Lee HC, Peisach J, Mazzarella L Biophys J. 2007 Oct 15;93(8):2822-9. Epub 2007 Jun 1. PMID:17545238<ref>PMID:17545238</ref>

	~~===Crystal structure~~ of ~~Trematomus bernacchii hemoglobin in a partial hemichrome state===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_17545238}}~~

	~~==About this Structure==~~
	~~[[2peg]] is a 2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Trematomus_bernacchii Trematomus bernacchii]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2PEG OCA].~~

	==See Also==		==See Also==
	*[[Hemoglobin\|Hemoglobin]]		*[[Hemoglobin 3D structures\|Hemoglobin 3D structures]]
			== References ==
	==~~Reference~~==		<references/>
	<~~ref group="xtra">PMID:017545238<~~/~~ref~~><~~references group="xtra"~~/>		__TOC__
			</StructureSection>
	[[Category: Trematomus bernacchii]]		[[Category: Trematomus bernacchii]]
	[[Category: Franzese, M.]]		[[Category: Franzese, M.]]

OCA at 15:44, 20 October 2012

2012-10-20T15:44:55Z

← Older revision		Revision as of 15:44, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
	[[2peg]] is a 2 chain structure ~~of [[Hemoglobin]]~~ with sequence from [http://en.wikipedia.org/wiki/Trematomus_bernacchii Trematomus bernacchii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PEG OCA].		[[2peg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Trematomus_bernacchii Trematomus bernacchii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PEG OCA].

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