2k31 - Revision history

OCA at 09:44, 9 May 2024

OCA — Thu, 09 May 2024 09:44:06 GMT

←Older revision		Revision as of 09:44, 9 May 2024
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	==Solution Structure of cGMP-binding GAF domain of Phosphodiesterase 5==		==Solution Structure of cGMP-binding GAF domain of Phosphodiesterase 5==
-	<StructureSection load='2k31' size='340' side='right'caption='[[2k31~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='2k31' size='340' side='right'caption='[[2k31]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2k31]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K31 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2K31 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2k31]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K31 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2K31 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=35G:GUANOSINE-3,5-MONOPHOSPHATE'>35G</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>Pde5a ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id~~=10090 Mus musculus])</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=35G:GUANOSINE-3,5-MONOPHOSPHATE'>35G</scene></td></tr>
-	~~<tr id='activity'><td class~~="~~sblockLbl~~"><~~b>Activity:</b></td><td class~~=~~"sblockDat"><span class~~=~~'plainlinks'>[https~~:~~//en.wikipedia.org/wiki/~~3',5'-~~cyclic-GMP_phosphodiesterase 3~~'~~,5'-cyclic-GMP phosphodiesterase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.35 3.1.4.35]~~ </~~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=2k31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k31 OCA], [https://pdbe.org/2k31 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2k31 RCSB], [https://www.ebi.ac.uk/pdbsum/2k31 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2k31 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=2k31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k31 OCA], [https://pdbe.org/2k31 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2k31 RCSB], [https://www.ebi.ac.uk/pdbsum/2k31 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2k31 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/PDE5A_MOUSE PDE5A_MOUSE]] Plays a role in signal transduction by regulating the intracellular concentration of cyclic nucleotides. This phosphodiesterase catalyzes the specific hydrolysis of cGMP to 5'-GMP. Specifically regulates nitric-oxide-generated cGMP.[UniProtKB:O76074]	+	[https://www.uniprot.org/uniprot/PDE5A_MOUSE PDE5A_MOUSE] Plays a role in signal transduction by regulating the intracellular concentration of cyclic nucleotides. This phosphodiesterase catalyzes the specific hydrolysis of cGMP to 5'-GMP. Specifically regulates nitric-oxide-generated cGMP.[UniProtKB:O76074]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 37:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: 3',5'-cyclic-GMP phosphodiesterase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
-	[[Category: Beavo~~, J A~~]]	+	[[Category: Beavo JA]]
-	[[Category: Brzovic~~, P S~~]]	+	[[Category: Brzovic PS]]
-	[[Category: Eakin~~, C M~~]]	+	[[Category: Eakin CM]]
-	[[Category: Heikaus~~, C C~~]]	+	[[Category: Heikaus CC]]
-	[[Category: Klevit~~, R E~~]]	+	[[Category: Klevit RE]]
-	[[Category: Rajagopal, P]]	+	[[Category: Rajagopal P]]
-	[[Category: Sekharan~~, M R~~]]	+	[[Category: Sekharan MR]]
-	[[Category: Stout~~, J R]]~~	+	[[Category: Stout JR]]
-	~~[[Category: Cgmp]]~~	+
-	~~[[Category: Cyclic nucleotide phosphodiesterase]]~~	+
-	~~[[Category: Gaf domain]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Pde5~~]]	+

OCA at 18:01, 20 October 2021

OCA — Wed, 20 Oct 2021 18:01:16 GMT

←Older revision		Revision as of 18:01, 20 October 2021
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	<StructureSection load='2k31' size='340' side='right'caption='[[2k31]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2k31' size='340' side='right'caption='[[2k31]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2k31]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K31 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2K31 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2k31]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K31 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2K31 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=35G:GUANOSINE-3,5-MONOPHOSPHATE'>35G</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=35G:GUANOSINE-3,5-MONOPHOSPHATE'>35G</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pde5a ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pde5a ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/3',5'-cyclic-GMP_phosphodiesterase 3',5'-cyclic-GMP phosphodiesterase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.35 3.1.4.35] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/3',5'-cyclic-GMP_phosphodiesterase 3',5'-cyclic-GMP phosphodiesterase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.35 3.1.4.35] </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=2k31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k31 OCA], [~~http~~://pdbe.org/2k31 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2k31 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2k31 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2k31 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=2k31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k31 OCA], [https://pdbe.org/2k31 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2k31 RCSB], [https://www.ebi.ac.uk/pdbsum/2k31 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2k31 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PDE5A_MOUSE PDE5A_MOUSE]] Plays a role in signal transduction by regulating the intracellular concentration of cyclic nucleotides. This phosphodiesterase catalyzes the specific hydrolysis of cGMP to 5'-GMP. Specifically regulates nitric-oxide-generated cGMP.[UniProtKB:O76074]	+	[[https://www.uniprot.org/uniprot/PDE5A_MOUSE PDE5A_MOUSE]] Plays a role in signal transduction by regulating the intracellular concentration of cyclic nucleotides. This phosphodiesterase catalyzes the specific hydrolysis of cGMP to 5'-GMP. Specifically regulates nitric-oxide-generated cGMP.[UniProtKB:O76074]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 06:54, 19 February 2020

OCA — Wed, 19 Feb 2020 06:54:10 GMT

←Older revision		Revision as of 06:54, 19 February 2020
Line 1:		Line 1:

	==Solution Structure of cGMP-binding GAF domain of Phosphodiesterase 5==		==Solution Structure of cGMP-binding GAF domain of Phosphodiesterase 5==
-	<StructureSection load='2k31' size='340' side='right' caption='[[2k31]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='2k31' size='340' side='right'caption='[[2k31]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2k31]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K31 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2K31 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2k31]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K31 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2K31 FirstGlance]. <br>
Line 32:		Line 32:

	==See Also==		==See Also==
-	*[[Phosphodiesterase\|Phosphodiesterase]]	+	*[[Phosphodiesterase 3D structures\|Phosphodiesterase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 38:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: 3',5'-cyclic-GMP phosphodiesterase]]		[[Category: 3',5'-cyclic-GMP phosphodiesterase]]
		+	[[Category: Large Structures]]
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: Beavo, J A]]		[[Category: Beavo, J A]]

OCA at 10:15, 18 July 2018

OCA — Wed, 18 Jul 2018 10:15:36 GMT

←Older revision		Revision as of 10:15, 18 July 2018
Line 1:		Line 1:
		+
	==Solution Structure of cGMP-binding GAF domain of Phosphodiesterase 5==		==Solution Structure of cGMP-binding GAF domain of Phosphodiesterase 5==
	<StructureSection load='2k31' size='340' side='right' caption='[[2k31]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2k31' size='340' side='right' caption='[[2k31]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
Line 6:		Line 7:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pde5a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pde5a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3',5'-cyclic-GMP_phosphodiesterase 3',5'-cyclic-GMP phosphodiesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.35 3.1.4.35] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3',5'-cyclic-GMP_phosphodiesterase 3',5'-cyclic-GMP phosphodiesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.35 3.1.4.35] </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=2k31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k31 OCA], [http://pdbe.org/2k31 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2k31 RCSB], [http://www.ebi.ac.uk/pdbsum/2k31 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=2k31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k31 OCA], [http://pdbe.org/2k31 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2k31 RCSB], [http://www.ebi.ac.uk/pdbsum/2k31 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2k31 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/k3/2k31_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k3/2k31_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>
	</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=2k31 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 13:32, 11 September 2015

OCA — Fri, 11 Sep 2015 13:32:03 GMT

←Older revision		Revision as of 13:32, 11 September 2015
Line 6:		Line 6:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pde5a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pde5a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3',5'-cyclic-GMP_phosphodiesterase 3',5'-cyclic-GMP phosphodiesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.35 3.1.4.35] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3',5'-cyclic-GMP_phosphodiesterase 3',5'-cyclic-GMP phosphodiesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.35 3.1.4.35] </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=2k31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k31 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2k31 RCSB], [http://www.ebi.ac.uk/pdbsum/2k31 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=2k31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k31 OCA], [http://pdbe.org/2k31 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2k31 RCSB], [http://www.ebi.ac.uk/pdbsum/2k31 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~Q0VBW0_MOUSE Q0VBW0_MOUSE~~]] Plays a role in signal transduction by regulating the intracellular concentration of cyclic nucleotides. This phosphodiesterase catalyzes the specific hydrolysis of cGMP to 5'-GMP ~~(By similarity)~~.	+	[[http://www.uniprot.org/uniprot/PDE5A_MOUSE PDE5A_MOUSE]] Plays a role in signal transduction by regulating the intracellular concentration of cyclic nucleotides. This phosphodiesterase catalyzes the specific hydrolysis of cGMP to 5'-GMP. Specifically regulates nitric-oxide-generated cGMP.[UniProtKB:O76074]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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 2k31" style="background-color:#fffaf0;"></div>

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

OCA at 17:07, 25 December 2014

OCA — Thu, 25 Dec 2014 17:07:20 GMT

←Older revision		Revision as of 17:07, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2k31]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K31 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2K31 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2k31]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K31 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2K31 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=35G:GUANOSINE-3,5-MONOPHOSPHATE'>35G</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=35G:GUANOSINE-3,5-MONOPHOSPHATE'>35G</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pde5a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pde5a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3',5'-cyclic-GMP_phosphodiesterase 3',5'-cyclic-GMP phosphodiesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.35 3.1.4.35] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3',5'-cyclic-GMP_phosphodiesterase 3',5'-cyclic-GMP phosphodiesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.35 3.1.4.35] </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=2k31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k31 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2k31 RCSB], [http://www.ebi.ac.uk/pdbsum/2k31 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=2k31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k31 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2k31 RCSB], [http://www.ebi.ac.uk/pdbsum/2k31 PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/Q0VBW0_MOUSE Q0VBW0_MOUSE]] Plays a role in signal transduction by regulating the intracellular concentration of cyclic nucleotides. This phosphodiesterase catalyzes the specific hydrolysis of cGMP to 5'-GMP (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 37:
	[[Category: 3',5'-cyclic-GMP phosphodiesterase]]		[[Category: 3',5'-cyclic-GMP phosphodiesterase]]
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
-	[[Category: Beavo, J A.]]	+	[[Category: Beavo, J A]]
-	[[Category: Brzovic, P S.]]	+	[[Category: Brzovic, P S]]
-	[[Category: Eakin, C M.]]	+	[[Category: Eakin, C M]]
-	[[Category: Heikaus, C C.]]	+	[[Category: Heikaus, C C]]
-	[[Category: Klevit, R E.]]	+	[[Category: Klevit, R E]]
-	[[Category: Rajagopal, P.]]	+	[[Category: Rajagopal, P]]
-	[[Category: Sekharan, M R.]]	+	[[Category: Sekharan, M R]]
-	[[Category: Stout, J R.]]	+	[[Category: Stout, J R]]
	[[Category: Cgmp]]		[[Category: Cgmp]]
	[[Category: Cyclic nucleotide phosphodiesterase]]		[[Category: Cyclic nucleotide phosphodiesterase]]

OCA at 04:27, 29 September 2014

OCA — Mon, 29 Sep 2014 04:27:39 GMT

←Older revision		Revision as of 04:27, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2k31.~~png~~\|~~left~~\|200px]]	+	==Solution Structure of cGMP-binding GAF domain of Phosphodiesterase 5==
		+	<StructureSection load='2k31' size='340' side='right' caption='[[2k31]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2k31]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K31 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2K31 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=35G:GUANOSINE-3,5-MONOPHOSPHATE'>35G</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pde5a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3',5'-cyclic-GMP_phosphodiesterase 3',5'-cyclic-GMP phosphodiesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.35 3.1.4.35] </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=2k31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k31 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2k31 RCSB], [http://www.ebi.ac.uk/pdbsum/2k31 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/k3/2k31_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 ==
		+	Phosphodiesterase 5 (PDE5) controls intracellular levels of cGMP through its regulation of cGMP hydrolysis. Hydrolytic activity of the C-terminal catalytic domain is increased by cGMP binding to the N-terminal GAF A domain. We present the NMR solution structure of the cGMP-bound PDE5A GAF A domain. The cGMP orientation in the buried binding pocket was defined through 37 intermolecular nuclear Overhauser effects. Comparison with GAF domains from PDE2A and adenylyl cyclase cyaB2 reveals a conserved overall domain fold of a six-stranded beta-sheet and four alpha-helices that form a well defined cGMP binding pocket. However, the nucleotide coordination is distinct with a series of altered binding contacts. The structure suggests that nucleotide binding specificity is provided by Asp-196, which is positioned to form two hydrogen bonds to the guanine ring of cGMP. An alanine mutation of Asp-196 disrupts cGMP binding and increases cAMP affinity in constructs containing only GAF A causing an altered cAMP-bound structural conformation. NMR studies on the tandem GAF domains reveal a flexible GAF A domain in the absence of cGMP, and indicate a large conformational change upon ligand binding. Furthermore, we identify a region of approximately 20 residues directly N-terminal of GAF A as critical for tight dimerization of the tandem GAF domains. The features of the PDE5 regulatory domain revealed here provide an initial structural basis for future investigations of the regulatory mechanism of PDE5 and the design of GAF-specific regulators of PDE5 function.

-	~~{{STRUCTURE_2k31\| PDB=2k31 \| SCENE= }}~~	+	Solution structure of the cGMP binding GAF domain from phosphodiesterase 5: insights into nucleotide specificity, dimerization, and cGMP-dependent conformational change.,Heikaus CC, Stout JR, Sekharan MR, Eakin CM, Rajagopal P, Brzovic PS, Beavo JA, Klevit RE J Biol Chem. 2008 Aug 15;283(33):22749-59. Epub 2008 Jun 4. PMID:18534985<ref>PMID:18534985</ref>

-	~~===Solution Structure~~ of ~~cGMP-binding GAF domain of Phosphodiesterase 5===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18534985}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2k31]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Mus_musculus Mus musculus]~~. ~~Full experimental information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2K31 OCA].~~	+

	==See Also==		==See Also==
	*[[Phosphodiesterase\|Phosphodiesterase]]		*[[Phosphodiesterase\|Phosphodiesterase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:018534985<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: 3',5'-cyclic-GMP phosphodiesterase]]		[[Category: 3',5'-cyclic-GMP phosphodiesterase]]
	[[Category: Mus musculus]]		[[Category: Mus musculus]]

OCA at 19:15, 20 October 2012

OCA — Sat, 20 Oct 2012 19:15:56 GMT

←Older revision		Revision as of 19:15, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2k31]] is a 1 chain structure ~~of [[Phosphodiesterase]]~~ with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K31 OCA].	+	[[2k31]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K31 OCA].

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

OCA: Protected "2k31" [edit=sysop:move=sysop]

OCA — Fri, 27 Jul 2012 06:47:22 GMT

Protected "2k31" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:47, 27 July 2012

OCA at 06:47, 27 July 2012

OCA — Fri, 27 Jul 2012 06:47:21 GMT

←Older revision		Revision as of 06:47, 27 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2k31.png\|left\|200px]]		[[Image:2k31.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2k31", 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.
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	{{STRUCTURE_2k31\| PDB=2k31 \| SCENE= }}		{{STRUCTURE_2k31\| PDB=2k31 \| SCENE= }}

	===Solution Structure of cGMP-binding GAF domain of Phosphodiesterase 5===		===Solution Structure of cGMP-binding GAF domain of Phosphodiesterase 5===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18534985}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18534985 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18534985}}		{{ABSTRACT_PUBMED_18534985}}

	==About this Structure==		==About this Structure==
-	~~2K31~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K31 OCA].	+	[[2k31]] is a 1 chain structure of [[Phosphodiesterase]] with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K31 OCA].
		+
		+	==See Also==
		+	*[[Phosphodiesterase\|Phosphodiesterase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18534985~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018534985</ref><references group="xtra"/>
	[[Category: 3',5'-cyclic-GMP phosphodiesterase]]		[[Category: 3',5'-cyclic-GMP phosphodiesterase]]
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
Line 38:		Line 29:
	[[Category: Gaf domain]]		[[Category: Gaf domain]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
-	[[Category: Nmr]]
	[[Category: Pde5]]		[[Category: Pde5]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 23:19:47 2009''