1pbx - Revision history

OCA at 05:54, 17 April 2024

OCA — Wed, 17 Apr 2024 05:54:20 GMT

←Older revision		Revision as of 05:54, 17 April 2024
Line 3:		Line 3:
	<StructureSection load='1pbx' size='340' side='right'caption='[[1pbx]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='1pbx' size='340' side='right'caption='[[1pbx]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1pbx]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Emerald_rockcod Emerald rockcod~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PBX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PBX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1pbx]] 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=1PBX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PBX FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CMO:CARBON+MONOXIDE'>CMO</scene>~~, ~~<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]] 2.5Å</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=CMO:CARBON+MONOXIDE'>CMO</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</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=1pbx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pbx OCA], [https://pdbe.org/1pbx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1pbx RCSB], [https://www.ebi.ac.uk/pdbsum/1pbx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1pbx 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=1pbx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pbx OCA], [https://pdbe.org/1pbx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1pbx RCSB], [https://www.ebi.ac.uk/pdbsum/1pbx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1pbx 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]]
Line 20:		Line 20:
	</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=1pbx 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=1pbx ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The Antarctic fish Pagothenia bernacchii has one major haemoglobin, Hb1 (over 95% of the total blood content). Hb1 has a strong alkaline Bohr effect and at low pH exhibits the reduced ligand affinity and co-operativity that comprise the Root effect. We have determined the complete amino acid sequence of P. bernacchii Hb1 and also the structure of its carbonmonoxy derivative by X-ray crystallography, to a resolution of 2.5 A. The crystallographic R-factor of the refined structure is 18%. The three-dimensional structure of this fish haemoglobin is similar to that of human haemoglobin A, with a root-mean-square difference in main-chain atom positions of 1.4 A after superimposition of the two structures, despite only 48% homology of their amino acid sequences (including insertion of a single residue in the CD region of the fish alpha-chain). Large structural differences occur only at the N and C termini of both the alpha- and beta-chains. Neither these nor other smaller structural differences provide any obvious explanation of the Root effect of this or other fish haemoglobins.
-
-	Haemoglobin of the antarctic fish Pagothenia bernacchii. Amino acid sequence, oxygen equilibria and crystal structure of its carbonmonoxy derivative.,Camardella L, Caruso C, D'Avino R, di Prisco G, Rutigliano B, Tamburrini M, Fermi G, Perutz MF J Mol Biol. 1992 Mar 20;224(2):449-60. PMID:1560461<ref>PMID:1560461</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1pbx" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Hemoglobin 3D structures\|Hemoglobin 3D structures]]		*[[Hemoglobin 3D structures\|Hemoglobin 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Emerald rockcod]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Fermi, G~~]]	+	[[Category: Trematomus bernacchii]]
-	[[Category: ~~Oxygen transport~~]]	+	[[Category: Fermi G]]

OCA at 09:27, 8 September 2021

OCA — Wed, 08 Sep 2021 09:27:42 GMT

←Older revision		Revision as of 09:27, 8 September 2021
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	<StructureSection load='1pbx' size='340' side='right'caption='[[1pbx]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='1pbx' size='340' side='right'caption='[[1pbx]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1pbx]] 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=1PBX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1PBX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1pbx]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Emerald_rockcod Emerald rockcod]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PBX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PBX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CMO:CARBON+MONOXIDE'>CMO</scene>, <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=CMO:CARBON+MONOXIDE'>CMO</scene>, <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='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=1pbx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pbx OCA], [~~http~~://pdbe.org/1pbx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1pbx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1pbx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1pbx 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=1pbx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pbx OCA], [https://pdbe.org/1pbx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1pbx RCSB], [https://www.ebi.ac.uk/pdbsum/1pbx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1pbx 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 10:18, 27 November 2019

OCA — Wed, 27 Nov 2019 10:18:50 GMT

←Older revision		Revision as of 10:18, 27 November 2019
Line 1:		Line 1:

	==HAEMOGLOBIN OF THE ANTARCTIC FISH PAGOTHENIA BERNACCHII: AMINO ACID SEQUENCE, OXYGEN EQUILIBRIA AND CRYSTAL STRUCTURE OF ITS CARBONMONOXY DERIVATIVE==		==HAEMOGLOBIN OF THE ANTARCTIC FISH PAGOTHENIA BERNACCHII: AMINO ACID SEQUENCE, OXYGEN EQUILIBRIA AND CRYSTAL STRUCTURE OF ITS CARBONMONOXY DERIVATIVE==
-	<StructureSection load='1pbx' size='340' side='right' caption='[[1pbx]], [[Resolution\|resolution]] 2.50Å' scene=''>	+	<StructureSection load='1pbx' size='340' side='right'caption='[[1pbx]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1pbx]] 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=1PBX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PBX FirstGlance]. <br>		<table><tr><td colspan='2'>[[1pbx]] 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=1PBX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PBX FirstGlance]. <br>
Line 29:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 1pbx" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1pbx" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Hemoglobin 3D structures\|Hemoglobin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 34:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Emerald rockcod]]		[[Category: Emerald rockcod]]
		+	[[Category: Large Structures]]
	[[Category: Fermi, G]]		[[Category: Fermi, G]]
	[[Category: Oxygen transport]]		[[Category: Oxygen transport]]

OCA at 07:48, 15 February 2018

OCA — Thu, 15 Feb 2018 07:48:33 GMT

←Older revision		Revision as of 07:48, 15 February 2018
Line 1:		Line 1:
		+
	==HAEMOGLOBIN OF THE ANTARCTIC FISH PAGOTHENIA BERNACCHII: AMINO ACID SEQUENCE, OXYGEN EQUILIBRIA AND CRYSTAL STRUCTURE OF ITS CARBONMONOXY DERIVATIVE==		==HAEMOGLOBIN OF THE ANTARCTIC FISH PAGOTHENIA BERNACCHII: AMINO ACID SEQUENCE, OXYGEN EQUILIBRIA AND CRYSTAL STRUCTURE OF ITS CARBONMONOXY DERIVATIVE==
	<StructureSection load='1pbx' size='340' side='right' caption='[[1pbx]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='1pbx' size='340' side='right' caption='[[1pbx]], [[Resolution\|resolution]] 2.50Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CMO:CARBON+MONOXIDE'>CMO</scene>, <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=CMO:CARBON+MONOXIDE'>CMO</scene>, <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='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=1pbx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pbx OCA], [http://pdbe.org/1pbx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1pbx RCSB], [http://www.ebi.ac.uk/pdbsum/1pbx 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=1pbx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pbx OCA], [http://pdbe.org/1pbx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1pbx RCSB], [http://www.ebi.ac.uk/pdbsum/1pbx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1pbx ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pb/1pbx_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pb/1pbx_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 28:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 1pbx" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1pbx" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Hemoglobin 3D structures\|Hemoglobin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 23:51, 8 February 2016

OCA — Mon, 08 Feb 2016 23:51:04 GMT

←Older revision		Revision as of 23:51, 8 February 2016
Line 17:		Line 17:
	<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=1pbx ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 16:34, 10 September 2015

OCA — Thu, 10 Sep 2015 16:34:27 GMT

←Older revision		Revision as of 16:34, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1pbx' size='340' side='right' caption='[[1pbx]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='1pbx' size='340' side='right' caption='[[1pbx]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1pbx]] 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=1PBX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PBX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1pbx]] 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=1PBX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PBX FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CMO:CARBON+MONOXIDE'>CMO</scene>, <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=CMO:CARBON+MONOXIDE'>CMO</scene>, <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='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=1pbx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pbx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1pbx RCSB], [http://www.ebi.ac.uk/pdbsum/1pbx 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=1pbx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pbx OCA], [http://pdbe.org/1pbx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1pbx RCSB], [http://www.ebi.ac.uk/pdbsum/1pbx PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	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 1pbx" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Trematomus bernacchii~~]]	+	[[Category: Emerald rockcod]]
	[[Category: Fermi, G]]		[[Category: Fermi, G]]
	[[Category: Oxygen transport]]		[[Category: Oxygen transport]]

OCA at 03:00, 25 December 2014

OCA — Thu, 25 Dec 2014 03:00:20 GMT

←Older revision		Revision as of 03:00, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1pbx]] 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=1PBX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PBX FirstGlance]. <br>		<table><tr><td colspan='2'>[[1pbx]] 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=1PBX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PBX FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CMO:CARBON+MONOXIDE'>CMO</scene>, <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=CMO:CARBON+MONOXIDE'>CMO</scene>, <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>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1pbx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pbx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1pbx RCSB], [http://www.ebi.ac.uk/pdbsum/1pbx 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=1pbx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pbx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1pbx RCSB], [http://www.ebi.ac.uk/pdbsum/1pbx PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== 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.
	== 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: Trematomus bernacchii]]		[[Category: Trematomus bernacchii]]
-	[[Category: Fermi, G.]]	+	[[Category: Fermi, G]]
	[[Category: Oxygen transport]]		[[Category: Oxygen transport]]

OCA at 19:44, 28 September 2014

OCA — Sun, 28 Sep 2014 19:44:31 GMT

←Older revision		Revision as of 19:44, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1pbx.~~png~~\|~~left~~\|200px]]	+	==HAEMOGLOBIN OF THE ANTARCTIC FISH PAGOTHENIA BERNACCHII: AMINO ACID SEQUENCE, OXYGEN EQUILIBRIA AND CRYSTAL STRUCTURE OF ITS CARBONMONOXY DERIVATIVE==
		+	<StructureSection load='1pbx' size='340' side='right' caption='[[1pbx]], [[Resolution\|resolution]] 2.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1pbx]] 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=1PBX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PBX FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CMO:CARBON+MONOXIDE'>CMO</scene>, <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>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1pbx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pbx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1pbx RCSB], [http://www.ebi.ac.uk/pdbsum/1pbx 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/pb/1pbx_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 ==
		+	The Antarctic fish Pagothenia bernacchii has one major haemoglobin, Hb1 (over 95% of the total blood content). Hb1 has a strong alkaline Bohr effect and at low pH exhibits the reduced ligand affinity and co-operativity that comprise the Root effect. We have determined the complete amino acid sequence of P. bernacchii Hb1 and also the structure of its carbonmonoxy derivative by X-ray crystallography, to a resolution of 2.5 A. The crystallographic R-factor of the refined structure is 18%. The three-dimensional structure of this fish haemoglobin is similar to that of human haemoglobin A, with a root-mean-square difference in main-chain atom positions of 1.4 A after superimposition of the two structures, despite only 48% homology of their amino acid sequences (including insertion of a single residue in the CD region of the fish alpha-chain). Large structural differences occur only at the N and C termini of both the alpha- and beta-chains. Neither these nor other smaller structural differences provide any obvious explanation of the Root effect of this or other fish haemoglobins.

-	~~{{STRUCTURE_1pbx\| PDB=1pbx \| SCENE= }}~~	+	Haemoglobin of the antarctic fish Pagothenia bernacchii. Amino acid sequence, oxygen equilibria and crystal structure of its carbonmonoxy derivative.,Camardella L, Caruso C, D'Avino R, di Prisco G, Rutigliano B, Tamburrini M, Fermi G, Perutz MF J Mol Biol. 1992 Mar 20;224(2):449-60. PMID:1560461<ref>PMID:1560461</ref>

-	~~===HAEMOGLOBIN OF THE ANTARCTIC FISH PAGOTHENIA BERNACCHII: AMINO ACID SEQUENCE~~, ~~OXYGEN EQUILIBRIA AND CRYSTAL STRUCTURE OF ITS CARBONMONOXY DERIVATIVE===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_1560461}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1pbx]] 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=1PBX OCA].~~	+

	==See Also==		==See Also==
-	*[[Hemoglobin\|Hemoglobin]]	+	*[[Hemoglobin 3D structures\|Hemoglobin 3D structures]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:001560461<~~/~~ref~~><~~ref group="xtra">PMID:010222199</ref><references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Trematomus bernacchii]]		[[Category: Trematomus bernacchii]]
	[[Category: Fermi, G.]]		[[Category: Fermi, G.]]
	[[Category: Oxygen transport]]		[[Category: Oxygen transport]]

OCA at 11:54, 20 October 2012

OCA — Sat, 20 Oct 2012 11:54:00 GMT

←Older revision		Revision as of 11:54, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1pbx]] 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=1PBX OCA].	+	[[1pbx]] 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=1PBX OCA].

	==See Also==		==See Also==
Line 14:		Line 14:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:001560461</ref><ref group="xtra">PMID:010222199~~</ref><ref group="xtra">PMID:010737936~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:001560461</ref><ref group="xtra">PMID:010222199</ref><references group="xtra"/>
	[[Category: Trematomus bernacchii]]		[[Category: Trematomus bernacchii]]
	[[Category: Fermi, G.]]		[[Category: Fermi, G.]]
	[[Category: Oxygen transport]]		[[Category: Oxygen transport]]

OCA: Protected "1pbx" [edit=sysop:move=sysop]

OCA — Thu, 26 Jul 2012 06:57:52 GMT

Protected "1pbx" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:57, 26 July 2012