1r7s - Revision history

OCA at 08:21, 14 February 2024

OCA — Wed, 14 Feb 2024 08:21:26 GMT

←Older revision		Revision as of 08:21, 14 February 2024
Line 3:		Line 3:
	<StructureSection load='1r7s' size='340' side='right'caption='[[1r7s]], [[Resolution\|resolution]] 1.91Å' scene=''>		<StructureSection load='1r7s' size='340' side='right'caption='[[1r7s]], [[Resolution\|resolution]] 1.91Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1r7s]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R7S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1R7S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1r7s]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R7S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1R7S FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</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]] 1.91Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style~~=~~'overflow: auto; max-height: 3em;'~~>~~[[1pdx\|1pdx]]~~<~~/div></td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]<~~/b></td>~~<td class="sblockDat">CAMB ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 "Bacillus fluorescens putidus" Flugge 1886])~~</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=1r7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r7s OCA], [https://pdbe.org/1r7s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1r7s RCSB], [https://www.ebi.ac.uk/pdbsum/1r7s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1r7s 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=1r7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r7s OCA], [https://pdbe.org/1r7s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1r7s RCSB], [https://www.ebi.ac.uk/pdbsum/1r7s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1r7s ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/PUTX_PSEPU PUTX_PSEPU]] The oxidation of camphor by cytochrome P450-CAM requires the participation of a flavoprotein, putidaredoxin reductase, and an iron-sulfur protein, putidaredoxin, to mediate the transfer of electrons from NADH to P450 for oxygen activation.	+	[https://www.uniprot.org/uniprot/PUTX_PSEPU PUTX_PSEPU] The oxidation of camphor by cytochrome P450-CAM requires the participation of a flavoprotein, putidaredoxin reductase, and an iron-sulfur protein, putidaredoxin, to mediate the transfer of electrons from NADH to P450 for oxygen activation.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=1r7s 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=1r7s ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The structure of the C73G mutant of putidaredoxin (Pdx), the Fe(2)S(2) ferredoxin that supplies electrons to cytochrome CYP101 (p450cam) for camphor oxidation, is reported at 1.9 A resolution in a C2 crystal form. The structure was solved by single-wavelength iron anomalous diffraction, which yielded electron density above the 2sigma level for over 97% of the non-H atoms in the protein. The final structure with R = 0.19 and R(free) = 0.21 has been deposited in the Protein Data Bank with accession code 1r7s. The C2 crystal contains three Pdx molecules in the asymmetric unit, giving three independent models of the protein that are very similar (r.m.s.d. < 0.3 A for the 106 C(alpha) atoms). The unusually high solvent fraction of 80% results in comparatively few crystal-packing artifacts. The structure is briefly compared with the recently reported crystal structures of the C73S and C73S/C85S mutants. In general, the eight independent molecules in the three crystal structures (three in C73G, three in C73S and two in C73S/C85S) are much more similar to each other than to the previously reported NMR structure of wild-type Pdx in solution. The present findings show a unanimous structure in some regions crucial for electron-transfer interactions, including the cluster-binding loop 39-48 and the cytochrome-interaction region of Asp38 and Trp106. In addition, the Cys45 amide group donates a hydrogen bond to cluster sulfur S1, with Ala46 adopting an Lalpha conformation, in all three molecules in the crystal.
-
-	Structure of C73G putidaredoxin from Pseudomonas putida.,Smith N, Mayhew M, Holden MJ, Kelly H, Robinson H, Heroux A, Vilker VL, Gallagher DT Acta Crystallogr D Biol Crystallogr. 2004 May;60(Pt 5):816-22. Epub 2004, Apr 21. PMID:15103126<ref>PMID:15103126</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1r7s" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Ferredoxin 3D structures\|Ferredoxin 3D structures]]		*[[Ferredoxin 3D structures\|Ferredoxin 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillus fluorescens putidus flugge 1886]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Gallagher~~, D T~~]]	+	[[Category: Pseudomonas putida]]
-	[[Category: Heroux, A]]	+	[[Category: Gallagher DT]]
-	[[Category: Holden~~, M J~~]]	+	[[Category: Heroux A]]
-	[[Category: Kelly, H]]	+	[[Category: Holden MJ]]
-	[[Category: Mayhew, M]]	+	[[Category: Kelly H]]
-	[[Category: Robinson, H]]	+	[[Category: Mayhew M]]
-	[[Category: Smith, N]]	+	[[Category: Robinson H]]
-	~~[[Category: Cytochrome p450cam]]~~	+	[[Category: Smith N]]
-	~~[[Category: Electron transfer]]~~	+
-	~~[[Category: Ferredoxin]]~~	+
-	~~[[Category: Iron-sulfur cluster~~]]	+

OCA at 15:24, 27 October 2021

OCA — Wed, 27 Oct 2021 15:24:34 GMT

←Older revision		Revision as of 15:24, 27 October 2021
Line 3:		Line 3:
	<StructureSection load='1r7s' size='340' side='right'caption='[[1r7s]], [[Resolution\|resolution]] 1.91Å' scene=''>		<StructureSection load='1r7s' size='340' side='right'caption='[[1r7s]], [[Resolution\|resolution]] 1.91Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1r7s]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R7S OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1R7S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1r7s]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R7S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1R7S FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</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;'>[[1pdx\|1pdx]]</div></td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1pdx\|1pdx]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAMB ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 "Bacillus fluorescens putidus" Flugge 1886])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAMB ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 "Bacillus fluorescens putidus" Flugge 1886])</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=1r7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r7s OCA], [~~http~~://pdbe.org/1r7s PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1r7s RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1r7s PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1r7s 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=1r7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r7s OCA], [https://pdbe.org/1r7s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1r7s RCSB], [https://www.ebi.ac.uk/pdbsum/1r7s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1r7s ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PUTX_PSEPU PUTX_PSEPU]] The oxidation of camphor by cytochrome P450-CAM requires the participation of a flavoprotein, putidaredoxin reductase, and an iron-sulfur protein, putidaredoxin, to mediate the transfer of electrons from NADH to P450 for oxygen activation.	+	[[https://www.uniprot.org/uniprot/PUTX_PSEPU PUTX_PSEPU]] The oxidation of camphor by cytochrome P450-CAM requires the participation of a flavoprotein, putidaredoxin reductase, and an iron-sulfur protein, putidaredoxin, to mediate the transfer of electrons from NADH to P450 for oxygen activation.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 13:20, 16 December 2020

OCA — Wed, 16 Dec 2020 13:20:57 GMT

←Older revision		Revision as of 13:20, 16 December 2020
Line 1:		Line 1:

	==PUTIDAREDOXIN (Fe2S2 ferredoxin), C73G mutant==		==PUTIDAREDOXIN (Fe2S2 ferredoxin), C73G mutant==
-	<StructureSection load='1r7s' size='340' side='right' caption='[[1r7s]], [[Resolution\|resolution]] 1.91Å' scene=''>	+	<StructureSection load='1r7s' size='340' side='right'caption='[[1r7s]], [[Resolution\|resolution]] 1.91Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1r7s]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R7S OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1R7S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1r7s]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R7S OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1R7S FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1pdx\|1pdx]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1pdx\|1pdx]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAMB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 "Bacillus fluorescens putidus" Flugge 1886])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAMB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 "Bacillus fluorescens putidus" Flugge 1886])</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=1r7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r7s OCA], [http://pdbe.org/1r7s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1r7s RCSB], [http://www.ebi.ac.uk/pdbsum/1r7s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1r7s 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=1r7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r7s OCA], [http://pdbe.org/1r7s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1r7s RCSB], [http://www.ebi.ac.uk/pdbsum/1r7s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1r7s ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 32:		Line 32:

	==See Also==		==See Also==
-	*[[Ferredoxin\|Ferredoxin]]	+	*[[Ferredoxin 3D structures\|Ferredoxin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 38:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus fluorescens putidus flugge 1886]]		[[Category: Bacillus fluorescens putidus flugge 1886]]
		+	[[Category: Large Structures]]
	[[Category: Gallagher, D T]]		[[Category: Gallagher, D T]]
	[[Category: Heroux, A]]		[[Category: Heroux, A]]

OCA at 08:14, 28 February 2018

OCA — Wed, 28 Feb 2018 08:14:06 GMT

←Older revision		Revision as of 08:14, 28 February 2018
Line 1:		Line 1:
		+
	==PUTIDAREDOXIN (Fe2S2 ferredoxin), C73G mutant==		==PUTIDAREDOXIN (Fe2S2 ferredoxin), C73G mutant==
	<StructureSection load='1r7s' size='340' side='right' caption='[[1r7s]], [[Resolution\|resolution]] 1.91Å' scene=''>		<StructureSection load='1r7s' size='340' side='right' caption='[[1r7s]], [[Resolution\|resolution]] 1.91Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1pdx\|1pdx]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1pdx\|1pdx]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAMB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 "Bacillus fluorescens putidus" Flugge 1886])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAMB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 "Bacillus fluorescens putidus" Flugge 1886])</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=1r7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r7s OCA], [http://pdbe.org/1r7s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1r7s RCSB], [http://www.ebi.ac.uk/pdbsum/1r7s 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=1r7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r7s OCA], [http://pdbe.org/1r7s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1r7s RCSB], [http://www.ebi.ac.uk/pdbsum/1r7s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1r7s ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 14:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/r7/1r7s_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/r7/1r7s_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 07:09, 10 February 2016

OCA — Wed, 10 Feb 2016 07:09:42 GMT

←Older revision		Revision as of 07:09, 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=1r7s ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 06:33, 11 September 2015

OCA — Fri, 11 Sep 2015 06:33:35 GMT

←Older revision		Revision as of 06:33, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1r7s' size='340' side='right' caption='[[1r7s]], [[Resolution\|resolution]] 1.91Å' scene=''>		<StructureSection load='1r7s' size='340' side='right' caption='[[1r7s]], [[Resolution\|resolution]] 1.91Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1r7s]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Pseudomonas_putida Pseudomonas putida~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R7S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1R7S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1r7s]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R7S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1R7S FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1pdx\|1pdx]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1pdx\|1pdx]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAMB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 ~~Pseudomonas putida~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAMB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 "Bacillus fluorescens putidus" Flugge 1886])</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=1r7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r7s OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1r7s RCSB], [http://www.ebi.ac.uk/pdbsum/1r7s 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=1r7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r7s OCA], [http://pdbe.org/1r7s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1r7s RCSB], [http://www.ebi.ac.uk/pdbsum/1r7s PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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 1r7s" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Pseudomonas putida~~]]	+	[[Category: Bacillus fluorescens putidus flugge 1886]]
	[[Category: Gallagher, D T]]		[[Category: Gallagher, D T]]
	[[Category: Heroux, A]]		[[Category: Heroux, A]]

OCA at 12:38, 25 December 2014

OCA — Thu, 25 Dec 2014 12:38:34 GMT

←Older revision		Revision as of 12:38, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1r7s]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R7S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1R7S FirstGlance]. <br>		<table><tr><td colspan='2'>[[1r7s]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R7S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1R7S FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1pdx\|1pdx]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1pdx\|1pdx]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAMB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 Pseudomonas putida])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAMB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 Pseudomonas putida])</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=1r7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r7s OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1r7s RCSB], [http://www.ebi.ac.uk/pdbsum/1r7s 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=1r7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r7s OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1r7s RCSB], [http://www.ebi.ac.uk/pdbsum/1r7s PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PUTX_PSEPU PUTX_PSEPU]] The oxidation of camphor by cytochrome P450-CAM requires the participation of a flavoprotein, putidaredoxin reductase, and an iron-sulfur protein, putidaredoxin, to mediate the transfer of electrons from NADH to P450 for oxygen activation.
	== 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: Pseudomonas putida]]		[[Category: Pseudomonas putida]]
-	[[Category: Gallagher, D T.]]	+	[[Category: Gallagher, D T]]
-	[[Category: Heroux, A.]]	+	[[Category: Heroux, A]]
-	[[Category: Holden, M J.]]	+	[[Category: Holden, M J]]
-	[[Category: Kelly, H.]]	+	[[Category: Kelly, H]]
-	[[Category: Mayhew, M.]]	+	[[Category: Mayhew, M]]
-	[[Category: Robinson, H.]]	+	[[Category: Robinson, H]]
-	[[Category: Smith, N.]]	+	[[Category: Smith, N]]
	[[Category: Cytochrome p450cam]]		[[Category: Cytochrome p450cam]]
	[[Category: Electron transfer]]		[[Category: Electron transfer]]
	[[Category: Ferredoxin]]		[[Category: Ferredoxin]]
	[[Category: Iron-sulfur cluster]]		[[Category: Iron-sulfur cluster]]

OCA at 21:24, 28 September 2014

OCA — Sun, 28 Sep 2014 21:24:03 GMT

←Older revision		Revision as of 21:24, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1r7s.~~png~~\|~~left~~\|200px]]	+	==PUTIDAREDOXIN (Fe2S2 ferredoxin), C73G mutant==
		+	<StructureSection load='1r7s' size='340' side='right' caption='[[1r7s]], [[Resolution\|resolution]] 1.91Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1r7s]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R7S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1R7S FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1pdx\|1pdx]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CAMB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 Pseudomonas putida])</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=1r7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r7s OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1r7s RCSB], [http://www.ebi.ac.uk/pdbsum/1r7s 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/r7/1r7s_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 structure of the C73G mutant of putidaredoxin (Pdx), the Fe(2)S(2) ferredoxin that supplies electrons to cytochrome CYP101 (p450cam) for camphor oxidation, is reported at 1.9 A resolution in a C2 crystal form. The structure was solved by single-wavelength iron anomalous diffraction, which yielded electron density above the 2sigma level for over 97% of the non-H atoms in the protein. The final structure with R = 0.19 and R(free) = 0.21 has been deposited in the Protein Data Bank with accession code 1r7s. The C2 crystal contains three Pdx molecules in the asymmetric unit, giving three independent models of the protein that are very similar (r.m.s.d. < 0.3 A for the 106 C(alpha) atoms). The unusually high solvent fraction of 80% results in comparatively few crystal-packing artifacts. The structure is briefly compared with the recently reported crystal structures of the C73S and C73S/C85S mutants. In general, the eight independent molecules in the three crystal structures (three in C73G, three in C73S and two in C73S/C85S) are much more similar to each other than to the previously reported NMR structure of wild-type Pdx in solution. The present findings show a unanimous structure in some regions crucial for electron-transfer interactions, including the cluster-binding loop 39-48 and the cytochrome-interaction region of Asp38 and Trp106. In addition, the Cys45 amide group donates a hydrogen bond to cluster sulfur S1, with Ala46 adopting an Lalpha conformation, in all three molecules in the crystal.

-	~~{{STRUCTURE_1r7s\| PDB=1r7s \| SCENE= }}~~	+	Structure of C73G putidaredoxin from Pseudomonas putida.,Smith N, Mayhew M, Holden MJ, Kelly H, Robinson H, Heroux A, Vilker VL, Gallagher DT Acta Crystallogr D Biol Crystallogr. 2004 May;60(Pt 5):816-22. Epub 2004, Apr 21. PMID:15103126<ref>PMID:15103126</ref>

-	~~===PUTIDAREDOXIN (Fe2S2 ferredoxin)~~, ~~C73G mutant===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_15103126}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1r7s]] is~~ a ~~3 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Pseudomonas_putida Pseudomonas putida]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1R7S OCA].~~	+

	==See Also==		==See Also==
	*[[Ferredoxin\|Ferredoxin]]		*[[Ferredoxin\|Ferredoxin]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:015103126<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Pseudomonas putida]]		[[Category: Pseudomonas putida]]
	[[Category: Gallagher, D T.]]		[[Category: Gallagher, D T.]]

OCA at 16:46, 20 October 2012

OCA — Sat, 20 Oct 2012 16:46:05 GMT

←Older revision		Revision as of 16:46, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1r7s]] is a 3 chain structure ~~of [[Ferredoxin]]~~ with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R7S OCA].	+	[[1r7s]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R7S OCA].

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

OCA at 22:46, 26 July 2012

OCA — Thu, 26 Jul 2012 22:46:24 GMT

←Older revision		Revision as of 22:46, 26 July 2012
Line 1:		Line 1:
	[[Image:1r7s.png\|left\|200px]]		[[Image:1r7s.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1r7s", 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_1r7s\| PDB=1r7s \| SCENE= }}		{{STRUCTURE_1r7s\| PDB=1r7s \| SCENE= }}

	===PUTIDAREDOXIN (Fe2S2 ferredoxin), C73G mutant===		===PUTIDAREDOXIN (Fe2S2 ferredoxin), C73G mutant===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_15103126}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 15103126 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_15103126}}		{{ABSTRACT_PUBMED_15103126}}

Line 22:		Line 11:

	==See Also==		==See Also==
-	*[[Ferredoxin]]	+	*[[Ferredoxin\|Ferredoxin]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~15103126~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:015103126</ref><references group="xtra"/>
	[[Category: Pseudomonas putida]]		[[Category: Pseudomonas putida]]
	[[Category: Gallagher, D T.]]		[[Category: Gallagher, D T.]]