1d4o - Revision history

OCA at 06:49, 7 February 2024

OCA — Wed, 07 Feb 2024 06:49:19 GMT

←Older revision		Revision as of 06:49, 7 February 2024
Line 3:		Line 3:
	<StructureSection load='1d4o' size='340' side='right'caption='[[1d4o]], [[Resolution\|resolution]] 1.21Å' scene=''>		<StructureSection load='1d4o' size='340' side='right'caption='[[1d4o]], [[Resolution\|resolution]] 1.21Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1d4o]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Bovin Bovin~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D4O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1D4O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1d4o]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D4O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1D4O FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=NAP:NADP+NICOTINAMIDE~~-~~ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</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]] 1.21Å</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_(B~~-~~specific) NAD(P)(~~+~~) transhydrogenase (B-specific)], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.1 1.6.1.1]~~ </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1d4o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d4o OCA], [https://pdbe.org/1d4o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1d4o RCSB], [https://www.ebi.ac.uk/pdbsum/1d4o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1d4o 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=1d4o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d4o OCA], [https://pdbe.org/1d4o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1d4o RCSB], [https://www.ebi.ac.uk/pdbsum/1d4o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1d4o ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/NNTM_BOVIN NNTM_BOVIN]] The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane.	+	[https://www.uniprot.org/uniprot/NNTM_BOVIN NNTM_BOVIN] The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 20:		Line 20:
	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1d4o 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=1d4o ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The nicotinamide nucleotide transhydrogenases (TH) of mitochondria and bacteria are membrane-intercalated proton pumps that transduce substrate binding energy and protonmotive force via protein conformational changes. In mitochondria, TH utilizes protonmotive force to promote direct hydride ion transfer from NADH to NADP, which are bound at the distinct extramembranous domains I and III, respectively. Domain II is the membrane-intercalated domain and contains the enzyme's proton channel. This paper describes the crystal structure of the NADP(H) binding domain III of bovine TH at 1.2 A resolution. The structure reveals that NADP is bound in a manner inverted from that previously observed for nucleotide binding folds. The non-classical binding mode exposes the NADP(H) nicotinamide ring for direct contact with NAD(H) in domain I, in accord with biochemical data. The surface of domain III surrounding the exposed nicotinamide is comprised of conserved residues presumed to form the interface with domain I during hydride ion transfer. Further, an adjacent region contains a number of acidic residues, forming a surface with negative electrostatic potential which may interact with extramembranous loops of domain II. Together, the distinctive surface features allow mechanistic considerations regarding the NADP(H)-promoted conformation changes that are involved in the interactions of domain III with domains I and II for hydride ion transfer and proton translocation.
-
-	Crystal structure of transhydrogenase domain III at 1.2 A resolution.,Prasad GS, Sridhar V, Yamaguchi M, Hatefi Y, Stout CD Nat Struct Biol. 1999 Dec;6(12):1126-31. PMID:10581554<ref>PMID:10581554</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1d4o" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[NAD(P) transhydrogenase 3D structures\|NAD(P) transhydrogenase 3D structures]]		*[[NAD(P) transhydrogenase 3D structures\|NAD(P) transhydrogenase 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bovin~~]]	+	[[Category: Bos taurus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Hatefi, Y]]	+	[[Category: Hatefi Y]]
-	[[Category: Prasad~~, G S~~]]	+	[[Category: Prasad GS]]
-	[[Category: Sridhar, V]]	+	[[Category: Sridhar V]]
-	[[Category: Stout~~, C D~~]]	+	[[Category: Stout CD]]
-	[[Category: Yamaguchi, M]]	+	[[Category: Yamaguchi M]]
-	~~[[Category: Nucleotide-binding fold]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 06:29, 11 August 2021

OCA — Wed, 11 Aug 2021 06:29:44 GMT

←Older revision		Revision as of 06:29, 11 August 2021
Line 3:		Line 3:
	<StructureSection load='1d4o' size='340' side='right'caption='[[1d4o]], [[Resolution\|resolution]] 1.21Å' scene=''>		<StructureSection load='1d4o' size='340' side='right'caption='[[1d4o]], [[Resolution\|resolution]] 1.21Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1d4o]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Bovin Bovin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D4O OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1D4O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1d4o]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bovin Bovin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D4O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1D4O FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></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_(B-specific) NAD(P)(+) transhydrogenase (B-specific)], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.1 1.6.1.1] </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_(B-specific) NAD(P)(+) transhydrogenase (B-specific)], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.1 1.6.1.1] </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=1d4o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d4o OCA], [~~http~~://pdbe.org/1d4o PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1d4o RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1d4o PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1d4o 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=1d4o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d4o OCA], [https://pdbe.org/1d4o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1d4o RCSB], [https://www.ebi.ac.uk/pdbsum/1d4o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1d4o ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/NNTM_BOVIN NNTM_BOVIN]] The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane.	+	[[https://www.uniprot.org/uniprot/NNTM_BOVIN NNTM_BOVIN]] The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 09:07, 6 November 2019

OCA — Wed, 06 Nov 2019 09:07:17 GMT

←Older revision		Revision as of 09:07, 6 November 2019
Line 1:		Line 1:

	==CRYSTAL STRUCTURE OF TRANSHYDROGENASE DOMAIN III AT 1.2 ANGSTROMS RESOLUTION==		==CRYSTAL STRUCTURE OF TRANSHYDROGENASE DOMAIN III AT 1.2 ANGSTROMS RESOLUTION==
-	<StructureSection load='1d4o' size='340' side='right' caption='[[1d4o]], [[Resolution\|resolution]] 1.21Å' scene=''>	+	<StructureSection load='1d4o' size='340' side='right'caption='[[1d4o]], [[Resolution\|resolution]] 1.21Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1d4o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bovin Bovin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D4O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1D4O FirstGlance]. <br>		<table><tr><td colspan='2'>[[1d4o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bovin Bovin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D4O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1D4O FirstGlance]. <br>
Line 29:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 1d4o" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1d4o" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[NAD(P) transhydrogenase 3D structures\|NAD(P) transhydrogenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 34:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Bovin]]		[[Category: Bovin]]
		+	[[Category: Large Structures]]
	[[Category: Hatefi, Y]]		[[Category: Hatefi, Y]]
	[[Category: Prasad, G S]]		[[Category: Prasad, G S]]

OCA at 08:23, 6 December 2017

OCA — Wed, 06 Dec 2017 08:23:56 GMT

←Older revision		Revision as of 08:23, 6 December 2017
Line 1:		Line 1:
		+
	==CRYSTAL STRUCTURE OF TRANSHYDROGENASE DOMAIN III AT 1.2 ANGSTROMS RESOLUTION==		==CRYSTAL STRUCTURE OF TRANSHYDROGENASE DOMAIN III AT 1.2 ANGSTROMS RESOLUTION==
	<StructureSection load='1d4o' size='340' side='right' caption='[[1d4o]], [[Resolution\|resolution]] 1.21Å' scene=''>		<StructureSection load='1d4o' size='340' side='right' caption='[[1d4o]], [[Resolution\|resolution]] 1.21Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></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_(B-specific) NAD(P)(+) transhydrogenase (B-specific)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.1 1.6.1.1] </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_(B-specific) NAD(P)(+) transhydrogenase (B-specific)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.1 1.6.1.1] </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=1d4o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d4o OCA], [http://pdbe.org/1d4o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1d4o RCSB], [http://www.ebi.ac.uk/pdbsum/1d4o 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=1d4o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d4o OCA], [http://pdbe.org/1d4o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1d4o RCSB], [http://www.ebi.ac.uk/pdbsum/1d4o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1d4o ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/d4/1d4o_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/d4/1d4o_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 28:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 1d4o" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1d4o" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[NAD(P) transhydrogenase\|NAD(P) transhydrogenase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:32, 10 February 2016

OCA — Wed, 10 Feb 2016 07:32:21 GMT

←Older revision		Revision as of 07:32, 10 February 2016
Line 17:		Line 17:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1d4o ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 06:43, 11 September 2015

OCA — Fri, 11 Sep 2015 06:43:29 GMT

←Older revision		Revision as of 06:43, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1d4o' size='340' side='right' caption='[[1d4o]], [[Resolution\|resolution]] 1.21Å' scene=''>		<StructureSection load='1d4o' size='340' side='right' caption='[[1d4o]], [[Resolution\|resolution]] 1.21Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1d4o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Bos_taurus Bos taurus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D4O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1D4O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1d4o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bovin Bovin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D4O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1D4O FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></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_(B-specific) NAD(P)(+) transhydrogenase (B-specific)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.1 1.6.1.1] </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_(B-specific) NAD(P)(+) transhydrogenase (B-specific)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.1 1.6.1.1] </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=1d4o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d4o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1d4o RCSB], [http://www.ebi.ac.uk/pdbsum/1d4o 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=1d4o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d4o OCA], [http://pdbe.org/1d4o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1d4o RCSB], [http://www.ebi.ac.uk/pdbsum/1d4o PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 27:		Line 27:
	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 1d4o" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bos taurus~~]]	+	[[Category: Bovin]]
	[[Category: Hatefi, Y]]		[[Category: Hatefi, Y]]
	[[Category: Prasad, G S]]		[[Category: Prasad, G S]]

OCA at 12:44, 25 December 2014

OCA — Thu, 25 Dec 2014 12:44:57 GMT

←Older revision		Revision as of 12:44, 25 December 2014
Line 7:		Line 7:
	<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=1d4o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d4o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1d4o RCSB], [http://www.ebi.ac.uk/pdbsum/1d4o 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=1d4o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d4o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1d4o RCSB], [http://www.ebi.ac.uk/pdbsum/1d4o PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/NNTM_BOVIN NNTM_BOVIN]] The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 21:02, 22 December 2014

OCA — Mon, 22 Dec 2014 21:02:10 GMT

←Older revision		Revision as of 21:02, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1d4o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D4O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1D4O FirstGlance]. <br>		<table><tr><td colspan='2'>[[1d4o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D4O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1D4O FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/NAD(P)(+)_transhydrogenase_(B-specific) NAD(P)(+) transhydrogenase (B-specific)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.1 1.6.1.1] </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_(B-specific) NAD(P)(+) transhydrogenase (B-specific)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.1 1.6.1.1] </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=1d4o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d4o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1d4o RCSB], [http://www.ebi.ac.uk/pdbsum/1d4o 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=1d4o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d4o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1d4o RCSB], [http://www.ebi.ac.uk/pdbsum/1d4o PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
-	[[Category: Hatefi, Y.]]	+	[[Category: Hatefi, Y]]
-	[[Category: Prasad, G S.]]	+	[[Category: Prasad, G S]]
-	[[Category: Sridhar, V.]]	+	[[Category: Sridhar, V]]
-	[[Category: Stout, C D.]]	+	[[Category: Stout, C D]]
-	[[Category: Yamaguchi, M.]]	+	[[Category: Yamaguchi, M]]
	[[Category: Nucleotide-binding fold]]		[[Category: Nucleotide-binding fold]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 09:14, 27 August 2014

OCA — Wed, 27 Aug 2014 09:14:57 GMT

←Older revision		Revision as of 09:14, 27 August 2014
Line 1:		Line 1:
-	[[~~Image~~:1d4o.~~png\|left~~\|200px]]	+	==CRYSTAL STRUCTURE OF TRANSHYDROGENASE DOMAIN III AT 1.2 ANGSTROMS RESOLUTION==
		+	<StructureSection load='1d4o' size='340' side='right' caption='[[1d4o]], [[Resolution\|resolution]] 1.21Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1d4o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D4O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1D4O FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene><br>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/NAD(P)(+)_transhydrogenase_(B-specific) NAD(P)(+) transhydrogenase (B-specific)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.1.1 1.6.1.1] </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=1d4o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d4o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1d4o RCSB], [http://www.ebi.ac.uk/pdbsum/1d4o 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/d4/1d4o_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 nicotinamide nucleotide transhydrogenases (TH) of mitochondria and bacteria are membrane-intercalated proton pumps that transduce substrate binding energy and protonmotive force via protein conformational changes. In mitochondria, TH utilizes protonmotive force to promote direct hydride ion transfer from NADH to NADP, which are bound at the distinct extramembranous domains I and III, respectively. Domain II is the membrane-intercalated domain and contains the enzyme's proton channel. This paper describes the crystal structure of the NADP(H) binding domain III of bovine TH at 1.2 A resolution. The structure reveals that NADP is bound in a manner inverted from that previously observed for nucleotide binding folds. The non-classical binding mode exposes the NADP(H) nicotinamide ring for direct contact with NAD(H) in domain I, in accord with biochemical data. The surface of domain III surrounding the exposed nicotinamide is comprised of conserved residues presumed to form the interface with domain I during hydride ion transfer. Further, an adjacent region contains a number of acidic residues, forming a surface with negative electrostatic potential which may interact with extramembranous loops of domain II. Together, the distinctive surface features allow mechanistic considerations regarding the NADP(H)-promoted conformation changes that are involved in the interactions of domain III with domains I and II for hydride ion transfer and proton translocation.

-	~~{{STRUCTURE_1d4o\| PDB=1d4o \| SCENE= }}~~	+	Crystal structure of transhydrogenase domain III at 1.2 A resolution.,Prasad GS, Sridhar V, Yamaguchi M, Hatefi Y, Stout CD Nat Struct Biol. 1999 Dec;6(12):1126-31. PMID:10581554<ref>PMID:10581554</ref>

-	~~===CRYSTAL STRUCTURE OF TRANSHYDROGENASE DOMAIN III AT 1~~.~~2 ANGSTROMS RESOLUTION===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_10581554}}~~	+	==See Also==
-		+	*[[NAD(P) transhydrogenase\|NAD(P) transhydrogenase]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~1d4o~~]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D4O OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:010581554<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
	[[Category: Hatefi, Y.]]		[[Category: Hatefi, Y.]]

OCA: Protected "1d4o" [edit=sysop:move=sysop]

OCA — Sun, 21 Oct 2012 20:06:33 GMT

Protected "1d4o" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:06, 21 October 2012