2frd - Revision history

OCA at 09:31, 30 August 2023

2023-08-30T09:31:32Z

← Older revision		Revision as of 09:31, 30 August 2023
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	<StructureSection load='2frd' size='340' side='right'caption='[[2frd]], [[Resolution\|resolution]] 3.20Å' scene=''>		<StructureSection load='2frd' size='340' side='right'caption='[[2frd]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2frd]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"dicrospirillum_rubrum"_enderlein_1925 "dicrospirillum~~ rubrum~~" enderlein 1925~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FRD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FRD FirstGlance]. <br>		<table><tr><td colspan='2'>[[2frd]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Rhodospirillum_rubrum Rhodospirillum rubrum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FRD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FRD FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=NAI:1,4~~-~~DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</scene>~~, ~~<scene name='pdbligand=NDP:NADPH+DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NDP</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]] 3.2Å</td></tr>
	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[1hzz\|1hzz]], [[1nm5\|1nm5]], [[1u2d\|1u2d]], [[1u2g\|1u2g]], [[1u28\|1u28]], [[2fr8\|2fr8]], [[2fsv\|2fsv]]</div>~~</td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAI:1,4-DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</scene>, <scene name='pdbligand=NDP:NADPH+DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NDP</scene></td></tr>
	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>pntAA, nntA1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~1085~~ "~~Dicrospirillum rubrum" Enderlein 1925]), pntB, nntB ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum~~" ~~Enderlein 1925])</td~~><~~/tr>~~
	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks'>[https~~:~~//en.wikipedia.org/wiki/NAD(P)(~~+~~)_transhydrogenase_(Re/Si~~-~~specific) NAD(P)(+) transhydrogenase (Re/Si~~-~~specific)], with EC number [https://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=1.6.1.2 1.6.1.2]~~ </~~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=2frd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2frd OCA], [https://pdbe.org/2frd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2frd RCSB], [https://www.ebi.ac.uk/pdbsum/2frd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2frd 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=2frd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2frd OCA], [https://pdbe.org/2frd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2frd RCSB], [https://www.ebi.ac.uk/pdbsum/2frd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2frd ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/~~PNTAA_RHORU PNTAA_RHORU]~~] The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane ~~(By similarity)~~. [~~[https~~:~~//www.uniprot.org/uniprot/PNTB_RHORU PNTB_RHORU~~]~~] The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane (By similarity).~~		[https://www.uniprot.org/uniprot/PNTAA_RHORT PNTAA_RHORT] The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane.[UniProtKB:P07001]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	~~[[Category: Dicrospirillum rubrum enderlein 1925]]~~
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Boxel, G I.van~~]]		[[Category: Rhodospirillum rubrum]]
	[[Category: Brondijk~~, T H~~]]		[[Category: Brondijk TH]]
	[[Category: Jackson~~, J B~~]]		[[Category: Jackson JB]]
	[[Category: Mather~~, O C~~]]		[[Category: Mather OC]]
	[[Category: Quirk~~, P G~~]]		[[Category: Quirk PG]]
	[[Category: White~~, S A~~]]		[[Category: White SA]]
	[[Category: ~~Nadh]]~~		[[Category: Van Boxel GI]]
	~~[[Category: Nadph]]~~
	~~[[Category: Oxidoreductase~~]]

OCA at 15:32, 3 March 2021

2021-03-03T15:32:18Z

← Older revision		Revision as of 15:32, 3 March 2021
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	==Structure of Transhydrogenase (dI.S138A.NADH)2(dIII.NADPH)1 asymmetric complex==		==Structure of Transhydrogenase (dI.S138A.NADH)2(dIII.NADPH)1 asymmetric complex==
	<StructureSection load='2frd' size='340' side='right' caption='[[2frd]], [[Resolution\|resolution]] 3.20Å' scene=''>		<StructureSection load='2frd' size='340' side='right'caption='[[2frd]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2frd]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"dicrospirillum_rubrum"_enderlein_1925 "dicrospirillum rubrum" enderlein 1925]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FRD OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2FRD FirstGlance]. <br>		<table><tr><td colspan='2'>[[2frd]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/"dicrospirillum_rubrum"_enderlein_1925 "dicrospirillum rubrum" enderlein 1925]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FRD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FRD FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAI:1,4-DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</scene>, <scene name='pdbligand=NDP:NADPH+DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NDP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAI:1,4-DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</scene>, <scene name='pdbligand=NDP:NADPH+DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NDP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hzz\|1hzz]], [[1nm5\|1nm5]], [[1u2d\|1u2d]], [[1u2g\|1u2g]], [[1u28\|1u28]], [[2fr8\|2fr8]], [[2fsv\|2fsv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1hzz\|1hzz]], [[1nm5\|1nm5]], [[1u2d\|1u2d]], [[1u2g\|1u2g]], [[1u28\|1u28]], [[2fr8\|2fr8]], [[2fsv\|2fsv]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pntAA, nntA1 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum" Enderlein 1925]), pntB, nntB ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum" Enderlein 1925])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pntAA, nntA1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum" Enderlein 1925]), pntB, nntB ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum" Enderlein 1925])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/NAD(P)(+)_transhydrogenase_(Re/Si-specific) NAD(P)(+) transhydrogenase (Re/Si-specific)], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.2 1.6.1.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/NAD(P)(+)_transhydrogenase_(Re/Si-specific) NAD(P)(+) transhydrogenase (Re/Si-specific)], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.2 1.6.1.2] </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=2frd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2frd OCA], [~~http~~://pdbe.org/2frd PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2frd RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2frd PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2frd 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=2frd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2frd OCA], [https://pdbe.org/2frd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2frd RCSB], [https://www.ebi.ac.uk/pdbsum/2frd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2frd ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/PNTAA_RHORU PNTAA_RHORU]] The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane (By similarity). [[~~http~~://www.uniprot.org/uniprot/PNTB_RHORU PNTB_RHORU]] The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane (By similarity).		[[https://www.uniprot.org/uniprot/PNTAA_RHORU PNTAA_RHORU]] The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane (By similarity). [[https://www.uniprot.org/uniprot/PNTB_RHORU PNTB_RHORU]] The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	==See Also==		==See Also==
	*[[NAD(P) transhydrogenase\|NAD(P) transhydrogenase]]		*[[NAD(P) transhydrogenase 3D structures\|NAD(P) transhydrogenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Dicrospirillum rubrum enderlein 1925]]		[[Category: Dicrospirillum rubrum enderlein 1925]]
			[[Category: Large Structures]]
	[[Category: Boxel, G I.van]]		[[Category: Boxel, G I.van]]
	[[Category: Brondijk, T H]]		[[Category: Brondijk, T H]]

OCA at 06:55, 20 June 2018

2018-06-20T06:55:54Z

← Older revision		Revision as of 06:55, 20 June 2018
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	==Structure of Transhydrogenase (dI.S138A.NADH)2(dIII.NADPH)1 asymmetric complex==		==Structure of Transhydrogenase (dI.S138A.NADH)2(dIII.NADPH)1 asymmetric complex==
	<StructureSection load='2frd' size='340' side='right' caption='[[2frd]], [[Resolution\|resolution]] 3.20Å' scene=''>		<StructureSection load='2frd' size='340' side='right' caption='[[2frd]], [[Resolution\|resolution]] 3.20Å' scene=''>
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	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pntAA, nntA1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum" Enderlein 1925]), pntB, nntB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum" Enderlein 1925])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pntAA, nntA1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum" Enderlein 1925]), pntB, nntB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum" Enderlein 1925])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/NAD(P)(+)_transhydrogenase_(Re/Si-specific) NAD(P)(+) transhydrogenase (Re/Si-specific)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.2 1.6.1.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/NAD(P)(+)_transhydrogenase_(Re/Si-specific) NAD(P)(+) transhydrogenase (Re/Si-specific)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.2 1.6.1.2] </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=2frd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2frd OCA], [http://pdbe.org/2frd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2frd RCSB], [http://www.ebi.ac.uk/pdbsum/2frd 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=2frd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2frd OCA], [http://pdbe.org/2frd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2frd RCSB], [http://www.ebi.ac.uk/pdbsum/2frd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2frd ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fr/2frd_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fr/2frd_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 02:53, 10 February 2016

2016-02-10T02:53:44Z

← Older revision		Revision as of 02:53, 10 February 2016
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	<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=2frd ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 04:40, 11 September 2015

2015-09-11T04:40:34Z

← Older revision		Revision as of 04:40, 11 September 2015
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	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pntAA, nntA1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum" Enderlein 1925]), pntB, nntB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum" Enderlein 1925])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pntAA, nntA1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum" Enderlein 1925]), pntB, nntB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum" Enderlein 1925])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/NAD(P)(+)_transhydrogenase_(Re/Si-specific) NAD(P)(+) transhydrogenase (Re/Si-specific)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.2 1.6.1.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/NAD(P)(+)_transhydrogenase_(Re/Si-specific) NAD(P)(+) transhydrogenase (Re/Si-specific)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.2 1.6.1.2] </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=2frd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2frd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2frd RCSB], [http://www.ebi.ac.uk/pdbsum/2frd 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=2frd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2frd OCA], [http://pdbe.org/2frd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2frd RCSB], [http://www.ebi.ac.uk/pdbsum/2frd 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 2frd" style="background-color:#fffaf0;"></div>

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

OCA at 11:17, 25 December 2014

2014-12-25T11:17:53Z

← Older revision		Revision as of 11:17, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2frd]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"dicrospirillum_rubrum"_enderlein_1925 "dicrospirillum rubrum" enderlein 1925]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FRD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FRD FirstGlance]. <br>		<table><tr><td colspan='2'>[[2frd]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"dicrospirillum_rubrum"_enderlein_1925 "dicrospirillum rubrum" enderlein 1925]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FRD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FRD FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAI:1,4-DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</scene>, <scene name='pdbligand=NDP:NADPH+DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NDP</scene><br>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAI:1,4-DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</scene>, <scene name='pdbligand=NDP:NADPH+DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NDP</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hzz\|1hzz]], [[1nm5\|1nm5]], [[1u2d\|1u2d]], [[1u2g\|1u2g]], [[1u28\|1u28]], [[2fr8\|2fr8]], [[2fsv\|2fsv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hzz\|1hzz]], [[1nm5\|1nm5]], [[1u2d\|1u2d]], [[1u2g\|1u2g]], [[1u28\|1u28]], [[2fr8\|2fr8]], [[2fsv\|2fsv]]</td></tr>
	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pntAA, nntA1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum" Enderlein 1925]), pntB, nntB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum" Enderlein 1925])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pntAA, nntA1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum" Enderlein 1925]), pntB, nntB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum" Enderlein 1925])</td></tr>
	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/NAD(P)(+)_transhydrogenase_(Re/Si-specific) NAD(P)(+) transhydrogenase (Re/Si-specific)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.2 1.6.1.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/NAD(P)(+)_transhydrogenase_(Re/Si-specific) NAD(P)(+) transhydrogenase (Re/Si-specific)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.2 1.6.1.2] </span></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=2frd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2frd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2frd RCSB], [http://www.ebi.ac.uk/pdbsum/2frd 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=2frd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2frd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2frd RCSB], [http://www.ebi.ac.uk/pdbsum/2frd PDBsum]</span></td></tr>
	<table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/PNTAA_RHORU PNTAA_RHORU]] The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane (By similarity). [[http://www.uniprot.org/uniprot/PNTB_RHORU PNTB_RHORU]] The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Dicrospirillum rubrum enderlein 1925]]		[[Category: Dicrospirillum rubrum enderlein 1925]]
	[[Category: Boxel, G I.van.]]		[[Category: Boxel, G I.van]]
	[[Category: Brondijk, T H.]]		[[Category: Brondijk, T H]]
	[[Category: Jackson, J B.]]		[[Category: Jackson, J B]]
	[[Category: Mather, O C.]]		[[Category: Mather, O C]]
	[[Category: Quirk, P G.]]		[[Category: Quirk, P G]]
	[[Category: White, S A.]]		[[Category: White, S A]]
	[[Category: Nadh]]		[[Category: Nadh]]
	[[Category: Nadph]]		[[Category: Nadph]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 05:21, 3 October 2014

2014-10-03T05:21:23Z

← Older revision		Revision as of 05:21, 3 October 2014
Line 1:		Line 1:
	~~{{STRUCTURE_2frd\| PDB=2frd \| SCENE= }}~~		==Structure of Transhydrogenase (dI.S138A.NADH)2(dIII.NADPH)1 asymmetric complex==
	===Structure of Transhydrogenase (dI.S138A.NADH)2(dIII.NADPH)1 asymmetric complex===		<StructureSection load='2frd' size='340' side='right' caption='[[2frd]], [[Resolution\|resolution]] 3.20Å' scene=''>
	~~{{ABSTRACT_PUBMED_16533815}}~~		== Structural highlights ==
			<table><tr><td colspan='2'>[[2frd]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"dicrospirillum_rubrum"_enderlein_1925 "dicrospirillum rubrum" enderlein 1925]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FRD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FRD FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAI:1,4-DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</scene>, <scene name='pdbligand=NDP:NADPH+DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NDP</scene><br>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hzz\|1hzz]], [[1nm5\|1nm5]], [[1u2d\|1u2d]], [[1u2g\|1u2g]], [[1u28\|1u28]], [[2fr8\|2fr8]], [[2fsv\|2fsv]]</td></tr>
			<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pntAA, nntA1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum" Enderlein 1925]), pntB, nntB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1085 "Dicrospirillum rubrum" Enderlein 1925])</td></tr>
			<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/NAD(P)(+)_transhydrogenase_(Re/Si-specific) NAD(P)(+) transhydrogenase (Re/Si-specific)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.2 1.6.1.2] </span></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=2frd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2frd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2frd RCSB], [http://www.ebi.ac.uk/pdbsum/2frd 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/fr/2frd_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 ==
			Transhydrogenase couples proton translocation across a membrane to hydride transfer between NADH and NADP+. Previous x-ray structures of complexes of the nucleotide-binding components of transhydrogenase ("dI2dIII1" complexes) indicate that the dihydronicotinamide ring of NADH can move from a distal position relative to the nicotinamide ring of NADP+ to a proximal position. The movement might be responsible for gating hydride transfer during proton translocation. We have mutated three invariant amino acids, Arg-127, Asp-135, and Ser-138, in the NAD(H)-binding site of Rhodospirillum rubrum transhydrogenase. In each mutant, turnover by the intact enzyme is strongly inhibited. Stopped-flow experiments using dI2dIII1 complexes show that inhibition results from a block in the steps associated with hydride transfer. Mutation of Asp-135 and Ser-138 had no effect on the binding affinity of either NAD+ or NADH, but mutation of Arg-127 led to much weaker binding of NADH and slightly weaker binding of NAD+. X-ray structures of dI2dIII1 complexes carrying the mutations showed that their effects were restricted to the locality of the bound NAD(H). The results are consistent with the suggestion that in wild-type protein movement of the Arg-127 side chain, and its hydrogen bonding to Asp-135 and Ser-138, stabilizes the dihydronicotinamide of NADH in the proximal position for hydride transfer.

	~~==Function==~~		The role of invariant amino acid residues at the hydride transfer site of proton-translocating transhydrogenase.,Brondijk TH, van Boxel GI, Mather OC, Quirk PG, White SA, Jackson JB J Biol Chem. 2006 May 12;281(19):13345-54. Epub 2006 Mar 13. PMID:16533815<ref>PMID:16533815</ref>
	~~[[http://www~~.~~uniprot~~.~~org/uniprot/PNTAA_RHORU PNTAA_RHORU]] The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane~~ (~~By similarity~~)~~. [[http~~:~~//www~~.~~uniprot~~.~~org~~/~~uniprot/PNTB_RHORU PNTB_RHORU]] The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane (By similarity).~~

	~~==About this Structure==~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	~~[[2frd]] is~~ a ~~3 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/"dicrospirillum_rubrum"_enderlein_1925 "dicrospirillum rubrum" enderlein 1925]~~. ~~Full crystallographic information is available from [http:/~~/~~oca.weizmann.ac.il/oca-bin/ocashort?id=2FRD OCA].~~		</div>

	==~~Reference~~==		==See Also==
	~~<ref group~~=~~"xtra">PMID:016533815</ref>~~<references ~~group="xtra"~~/><~~references~~/>		*[[NAD(P) transhydrogenase\|NAD(P) transhydrogenase]]
			== References ==
			<references/>
			__TOC__
			</StructureSection>
	[[Category: Dicrospirillum rubrum enderlein 1925]]		[[Category: Dicrospirillum rubrum enderlein 1925]]
	[[Category: Boxel, G I.van.]]		[[Category: Boxel, G I.van.]]

OCA at 12:08, 20 November 2013

2013-11-20T12:08:24Z

← Older revision		Revision as of 12:08, 20 November 2013
Line 1:		Line 1:
	~~[[Image:2frd.png\|left\|200px]]~~

	{{STRUCTURE_2frd\| PDB=2frd \| SCENE= }}		{{STRUCTURE_2frd\| PDB=2frd \| SCENE= }}

	===Structure of Transhydrogenase (dI.S138A.NADH)2(dIII.NADPH)1 asymmetric complex===		===Structure of Transhydrogenase (dI.S138A.NADH)2(dIII.NADPH)1 asymmetric complex===
			{{ABSTRACT_PUBMED_16533815}}

	~~{{ABSTRACT_PUBMED_16533815}}~~		==Function==
			[[http://www.uniprot.org/uniprot/PNTAA_RHORU PNTAA_RHORU]] The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane (By similarity). [[http://www.uniprot.org/uniprot/PNTB_RHORU PNTB_RHORU]] The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane (By similarity).

	==About this Structure==		==About this Structure==
	[[2frd]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Rhodospirillum_rubrum Rhodospirillum~~ rubrum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FRD OCA].		[[2frd]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"dicrospirillum_rubrum"_enderlein_1925 "dicrospirillum rubrum" enderlein 1925]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FRD OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:016533815</ref><references group="xtra"/>		<ref group="xtra">PMID:016533815</ref><references group="xtra"/><references/>
	[[Category: ~~Rhodospirillum~~ rubrum]]		[[Category: Dicrospirillum rubrum enderlein 1925]]
	[[Category: Boxel, G I.van.]]		[[Category: Boxel, G I.van.]]
	[[Category: Brondijk, T H.]]		[[Category: Brondijk, T H.]]

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

2013-01-07T10:25:21Z

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

← Older revision	Revision as of 10:25, 7 January 2013
(No difference)

OCA at 10:25, 7 January 2013

2013-01-07T10:25:19Z

← Older revision		Revision as of 10:25, 7 January 2013
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	~~{{Seed}}~~
	[[Image:2frd.png\|left\|200px]]		[[Image:2frd.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_2frd", 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_2frd\| PDB=2frd \| SCENE= }}		{{STRUCTURE_2frd\| PDB=2frd \| SCENE= }}

	===Structure of Transhydrogenase (dI.S138A.NADH)2(dIII.NADPH)1 asymmetric complex===		===Structure of Transhydrogenase (dI.S138A.NADH)2(dIII.NADPH)1 asymmetric complex===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_16533815}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 16533815 is the PubMed ID number.~~
	~~-->~~
	{{ABSTRACT_PUBMED_16533815}}		{{ABSTRACT_PUBMED_16533815}}

	==About this Structure==		==About this Structure==
	~~2FRD~~ is a 3 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Rhodospirillum_rubrum Rhodospirillum rubrum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FRD OCA].		[[2frd]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhodospirillum_rubrum Rhodospirillum rubrum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FRD OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~16533815~~</ref><references group="xtra"/>		<ref group="xtra">PMID:016533815</ref><references group="xtra"/>
	[[Category: Rhodospirillum rubrum]]		[[Category: Rhodospirillum rubrum]]
	[[Category: Boxel, G I.van.]]		[[Category: Boxel, G I.van.]]
Line 34:		Line 22:
	[[Category: Nadph]]		[[Category: Nadph]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 14:50:38 2009''~~