2qdw - Revision history

OCA at 11:29, 30 August 2023

OCA — Wed, 30 Aug 2023 11:29:31 GMT

←Older revision		Revision as of 11:29, 30 August 2023
Line 3:		Line 3:
	<StructureSection load='2qdw' size='340' side='right'caption='[[2qdw]], [[Resolution\|resolution]] 0.92Å' scene=''>		<StructureSection load='2qdw' size='340' side='right'caption='[[2qdw]], [[Resolution\|resolution]] 0.92Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2qdw]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_17741 Atcc 17741~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QDW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QDW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2qdw]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Paracoccus_denitrificans Paracoccus denitrificans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QDW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QDW FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CU1:COPPER+(I)+ION'>CU1</scene>~~, ~~<scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 0.92Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~MHO~~:~~S-OXYMETHIONINE~~'>~~MHO~~</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU1:COPPER+(I)+ION'>CU1</scene>, <scene name='pdbligand=MHO:S-OXYMETHIONINE'>MHO</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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;~~'>~~[[2qdv\|2qdv]]~~</~~div~~><~~/td></tr>~~	+
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">mauC, ami ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=266 ATCC 17741])~~</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=2qdw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qdw OCA], [https://pdbe.org/2qdw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qdw RCSB], [https://www.ebi.ac.uk/pdbsum/2qdw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qdw 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=2qdw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qdw OCA], [https://pdbe.org/2qdw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qdw RCSB], [https://www.ebi.ac.uk/pdbsum/2qdw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qdw ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/AMCY_PARDE AMCY_PARDE]] Primary acceptor of electrons from methylamine dehydrogenase. Passes those electrons on either a soluble cytochrome c or to pseudoazurin.	+	[https://www.uniprot.org/uniprot/AMCY_PARDE AMCY_PARDE] Primary acceptor of electrons from methylamine dehydrogenase. Passes those electrons on either a soluble cytochrome c or to pseudoazurin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 31:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 2qdw" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2qdw" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Amicyanin 3D structures\|Amicyanin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 17741]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Carrell, C J~~]]	+	[[Category: Paracoccus denitrificans]]
-	[[Category: ~~Davidson, V L~~]]	+	[[Category: Carrell CJ]]
-	[[Category: ~~Ma, J K~~]]	+	[[Category: Davidson VL]]
-	[[Category: ~~Mathews, F S~~]]	+	[[Category: Ma JK]]
-	[[Category: ~~Wang, Y~~]]	+	[[Category: Mathews FS]]
-	[[Category: ~~Beta barrel]]~~	+	[[Category: Wang Y]]
-	~~[[Category: Cupredoxin]]~~	+
-	~~[[Category: Electron transfer]]~~	+
-	~~[[Category: Electron transport~~]]	+

OCA at 08:16, 25 June 2021

OCA — Fri, 25 Jun 2021 08:16:55 GMT

←Older revision		Revision as of 08:16, 25 June 2021
Line 1:		Line 1:

	==Structure of Cu(I) form of the M51A mutant of amicyanin==		==Structure of Cu(I) form of the M51A mutant of amicyanin==
-	<StructureSection load='2qdw' size='340' side='right' caption='[[2qdw]], [[Resolution\|resolution]] 0.92Å' scene=''>	+	<StructureSection load='2qdw' size='340' side='right'caption='[[2qdw]], [[Resolution\|resolution]] 0.92Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2qdw]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_17741 Atcc 17741]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QDW OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2QDW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2qdw]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_17741 Atcc 17741]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QDW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QDW FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU1:COPPER+(I)+ION'>CU1</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU1:COPPER+(I)+ION'>CU1</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MHO:S-OXYMETHIONINE'>MHO</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MHO:S-OXYMETHIONINE'>MHO</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qdv\|2qdv]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2qdv\|2qdv]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mauC, ami ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=266 ATCC 17741])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mauC, ami ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=266 ATCC 17741])</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=2qdw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qdw OCA], [~~http~~://pdbe.org/2qdw PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2qdw RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2qdw PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2qdw 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=2qdw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qdw OCA], [https://pdbe.org/2qdw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qdw RCSB], [https://www.ebi.ac.uk/pdbsum/2qdw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qdw ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/AMCY_PARDE AMCY_PARDE]] Primary acceptor of electrons from methylamine dehydrogenase. Passes those electrons on either a soluble cytochrome c or to pseudoazurin.	+	[[https://www.uniprot.org/uniprot/AMCY_PARDE AMCY_PARDE]] Primary acceptor of electrons from methylamine dehydrogenase. Passes those electrons on either a soluble cytochrome c or to pseudoazurin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 17741]]		[[Category: Atcc 17741]]
		+	[[Category: Large Structures]]
	[[Category: Carrell, C J]]		[[Category: Carrell, C J]]
	[[Category: Davidson, V L]]		[[Category: Davidson, V L]]

OCA at 08:40, 29 August 2018

OCA — Wed, 29 Aug 2018 08:40:33 GMT

←Older revision		Revision as of 08:40, 29 August 2018
Line 1:		Line 1:
		+
	==Structure of Cu(I) form of the M51A mutant of amicyanin==		==Structure of Cu(I) form of the M51A mutant of amicyanin==
	<StructureSection load='2qdw' size='340' side='right' caption='[[2qdw]], [[Resolution\|resolution]] 0.92Å' scene=''>		<StructureSection load='2qdw' size='340' side='right' caption='[[2qdw]], [[Resolution\|resolution]] 0.92Å' scene=''>
Line 7:		Line 8:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qdv\|2qdv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qdv\|2qdv]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mauC, ami ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=266 ATCC 17741])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mauC, ami ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=266 ATCC 17741])</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=2qdw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qdw OCA], [http://pdbe.org/2qdw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2qdw RCSB], [http://www.ebi.ac.uk/pdbsum/2qdw 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=2qdw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qdw OCA], [http://pdbe.org/2qdw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2qdw RCSB], [http://www.ebi.ac.uk/pdbsum/2qdw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2qdw ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 15:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qd/2qdw_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qd/2qdw_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 21:58, 8 February 2016

OCA — Mon, 08 Feb 2016 21:58:14 GMT

←Older revision		Revision as of 21:58, 8 February 2016
Line 19:		Line 19:
	<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=2qdw ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 15:45, 10 September 2015

OCA — Thu, 10 Sep 2015 15:45:39 GMT

←Older revision		Revision as of 15:45, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2qdw' size='340' side='right' caption='[[2qdw]], [[Resolution\|resolution]] 0.92Å' scene=''>		<StructureSection load='2qdw' size='340' side='right' caption='[[2qdw]], [[Resolution\|resolution]] 0.92Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2qdw]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Paracoccus_denitrificans Paracoccus denitrificans~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QDW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QDW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2qdw]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_17741 Atcc 17741]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QDW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QDW FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU1:COPPER+(I)+ION'>CU1</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU1:COPPER+(I)+ION'>CU1</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MHO:S-OXYMETHIONINE'>MHO</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MHO:S-OXYMETHIONINE'>MHO</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qdv\|2qdv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qdv\|2qdv]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mauC, ami ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=266 ~~Paracoccus denitrificans~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mauC, ami ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=266 ATCC 17741])</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=2qdw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qdw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qdw RCSB], [http://www.ebi.ac.uk/pdbsum/2qdw 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=2qdw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qdw OCA], [http://pdbe.org/2qdw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2qdw RCSB], [http://www.ebi.ac.uk/pdbsum/2qdw PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 29:		Line 29:
	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 2qdw" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Paracoccus denitrificans~~]]	+	[[Category: Atcc 17741]]
	[[Category: Carrell, C J]]		[[Category: Carrell, C J]]
	[[Category: Davidson, V L]]		[[Category: Davidson, V L]]

OCA at 02:24, 25 December 2014

OCA — Thu, 25 Dec 2014 02:24:59 GMT

←Older revision		Revision as of 02:24, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2qdw]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Paracoccus_denitrificans Paracoccus denitrificans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QDW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QDW FirstGlance]. <br>		<table><tr><td colspan='2'>[[2qdw]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Paracoccus_denitrificans Paracoccus denitrificans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QDW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QDW FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU1:COPPER+(I)+ION'>CU1</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU1:COPPER+(I)+ION'>CU1</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MHO:S-OXYMETHIONINE'>MHO</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MHO:S-OXYMETHIONINE'>MHO</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qdv\|2qdv]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qdv\|2qdv]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mauC, ami ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=266 Paracoccus denitrificans])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mauC, ami ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=266 Paracoccus denitrificans])</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=2qdw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qdw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qdw RCSB], [http://www.ebi.ac.uk/pdbsum/2qdw 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=2qdw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qdw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qdw RCSB], [http://www.ebi.ac.uk/pdbsum/2qdw PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/AMCY_PARDE AMCY_PARDE]] Primary acceptor of electrons from methylamine dehydrogenase. Passes those electrons on either a soluble cytochrome c or to pseudoazurin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Paracoccus denitrificans]]		[[Category: Paracoccus denitrificans]]
-	[[Category: Carrell, C J.]]	+	[[Category: Carrell, C J]]
-	[[Category: Davidson, V L.]]	+	[[Category: Davidson, V L]]
-	[[Category: Ma, J K.]]	+	[[Category: Ma, J K]]
-	[[Category: Mathews, F S.]]	+	[[Category: Mathews, F S]]
-	[[Category: Wang, Y.]]	+	[[Category: Wang, Y]]
	[[Category: Beta barrel]]		[[Category: Beta barrel]]
	[[Category: Cupredoxin]]		[[Category: Cupredoxin]]
	[[Category: Electron transfer]]		[[Category: Electron transfer]]
	[[Category: Electron transport]]		[[Category: Electron transport]]

OCA at 20:08, 30 September 2014

OCA — Tue, 30 Sep 2014 20:08:04 GMT

←Older revision		Revision as of 20:08, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2qdw.~~png~~\|~~left~~\|200px]]	+	==Structure of Cu(I) form of the M51A mutant of amicyanin==
		+	<StructureSection load='2qdw' size='340' side='right' caption='[[2qdw]], [[Resolution\|resolution]] 0.92Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2qdw]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Paracoccus_denitrificans Paracoccus denitrificans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QDW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QDW FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU1:COPPER+(I)+ION'>CU1</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MHO:S-OXYMETHIONINE'>MHO</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qdv\|2qdv]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mauC, ami ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=266 Paracoccus denitrificans])</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=2qdw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qdw OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qdw RCSB], [http://www.ebi.ac.uk/pdbsum/2qdw 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/qd/2qdw_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 ==
		+	Amicyanin is a type 1 copper protein that is the natural electron acceptor for the quinoprotein methylamine dehydrogenase (MADH). A P52G amicyanin mutation increased the Kd for complex formation and caused the normally true electron transfer (ET) reaction from O-quinol MADH to amicyanin to become a gated ET reaction (Ma, J. K., Carrell, C. J., Mathews, F. S., and Davidson, V. L. (2006) Biochemistry 45, 8284-8293). One consequence of the P52G mutation was to reposition the side chain of Met51, which is present at the MADH-amicyanin interface. To examine the precise role of Met51 in this interprotein ET reaction, Met51 was converted to Ala, Lys, and Leu. The Kd for complex formation of M51A amicyanin was unchanged but the experimentally determined electronic coupling increased from 12 cm-1 to 142 cm-1, and the reorganization energy increased from 2.3 to 3.1 eV. The rate and salt dependence of the proton transfer-gated ET reaction from N-quinol MADH to amicyanin is also changed by the M51A mutation. These changes in ET parameters and rates for the reactions with M51A amicyanin were similar to those caused by the P52G mutation and indicated that the ET reaction had become gated by a similar process, most likely a conformational rearrangement of the protein ET complex. The results of the M51K and M51L mutations also have consequences on the kinetic mechanism of regulation of the interprotein ET with effects that are intermediate between what is observed for the reaction of the native amicyanin and M51A amicyanin. These data indicate that the loss of the interactions involving Pro52 were primarily responsible for the change in Kd for P52G amicyanin, while the interactions involving the Met51 side chain are entirely responsible for the change in ET parameters and conversion of the true ET reaction of native amicyanin into a conformationally gated ET reaction.

-	~~{{STRUCTURE_2qdw\| PDB=2qdw \| SCENE= }}~~	+	A single methionine residue dictates the kinetic mechanism of interprotein electron transfer from methylamine dehydrogenase to amicyanin.,Ma JK, Wang Y, Carrell CJ, Mathews FS, Davidson VL Biochemistry. 2007 Oct 2;46(39):11137-46. Epub 2007 Sep 8. PMID:17824674<ref>PMID:17824674</ref>

-	~~===Structure of Cu(I) form~~ of the ~~M51A mutant of amicyanin===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17824674}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2qdw]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Paracoccus_denitrificans Paracoccus denitrificans]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2QDW OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:017824674<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Paracoccus denitrificans]]		[[Category: Paracoccus denitrificans]]
	[[Category: Carrell, C J.]]		[[Category: Carrell, C J.]]

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

OCA — Mon, 07 Jan 2013 23:00:54 GMT

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

←Older revision

Revision as of 23:00, 7 January 2013

OCA at 23:00, 7 January 2013

OCA — Mon, 07 Jan 2013 23:00:49 GMT

←Older revision		Revision as of 23:00, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2qdw.png\|left\|200px]]		[[Image:2qdw.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2qdw", 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_2qdw\| PDB=2qdw \| SCENE= }}		{{STRUCTURE_2qdw\| PDB=2qdw \| SCENE= }}

	===Structure of Cu(I) form of the M51A mutant of amicyanin===		===Structure of Cu(I) form of the M51A mutant of amicyanin===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17824674}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17824674 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17824674}}		{{ABSTRACT_PUBMED_17824674}}

	==About this Structure==		==About this Structure==
-	~~2QDW~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Paracoccus_denitrificans Paracoccus denitrificans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QDW OCA].	+	[[2qdw]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Paracoccus_denitrificans Paracoccus denitrificans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QDW OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17824674~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017824674</ref><references group="xtra"/>
	[[Category: Paracoccus denitrificans]]		[[Category: Paracoccus denitrificans]]
	[[Category: Carrell, C J.]]		[[Category: Carrell, C J.]]
Line 34:		Line 22:
	[[Category: Electron transfer]]		[[Category: Electron transfer]]
	[[Category: Electron transport]]		[[Category: Electron transport]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 03:48:52 2009''

OCA at 01:48, 17 February 2009

OCA — Tue, 17 Feb 2009 01:48:53 GMT

←Older revision		Revision as of 01:48, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2QDW is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Paracoccus_denitrificans Paracoccus denitrificans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QDW OCA].	+	2QDW is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Paracoccus_denitrificans Paracoccus denitrificans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QDW OCA].

	==Reference==		==Reference==
-	A single methionine residue dictates the kinetic mechanism of interprotein electron transfer from methylamine dehydrogenase to amicyanin., Ma JK, Wang Y, Carrell CJ, Mathews FS, Davidson VL, Biochemistry. 2007 Oct 2;46(39):11137-46. Epub 2007 Sep 8. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/17824674 17824674]~~	+	<ref group="xtra">PMID:17824674</ref><references group="xtra"/>
	[[Category: Paracoccus denitrificans]]		[[Category: Paracoccus denitrificans]]
-	[[Category: Single protein]]
	[[Category: Carrell, C J.]]		[[Category: Carrell, C J.]]
	[[Category: Davidson, V L.]]		[[Category: Davidson, V L.]]
Line 36:		Line 35:
	[[Category: Electron transport]]		[[Category: Electron transport]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Jul 28 07~~:11:~~38 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 03:48:52 2009''