3gon - Revision history

OCA at 07:09, 6 September 2023

2023-09-06T07:09:04Z

←Older revision		Revision as of 07:09, 6 September 2023
Line 3:		Line 3:
	<StructureSection load='3gon' size='340' side='right'caption='[[3gon]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='3gon' size='340' side='right'caption='[[3gon]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3gon]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Strr6 Strr6~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2pg9 2pg9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GON OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GON FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3gon]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_pneumoniae_R6 Streptococcus pneumoniae R6]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2pg9 2pg9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GON OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GON FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PMV:(3R)-3-HYDROXY-3-METHYL-5-(PHOSPHONOOXY)PENTANOIC+ACID'>PMV</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]] 1.9Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mvaK2, spr0340 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=171101 STRR6])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PMV:(3R)-3-HYDROXY-3-METHYL-5-(PHOSPHONOOXY)PENTANOIC+ACID'>PMV</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Phosphomevalonate_kinase Phosphomevalonate kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.4.2 2.7.4.2] </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=3gon FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gon OCA], [https://pdbe.org/3gon PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3gon RCSB], [https://www.ebi.ac.uk/pdbsum/3gon PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3gon 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=3gon FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gon OCA], [https://pdbe.org/3gon PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3gon RCSB], [https://www.ebi.ac.uk/pdbsum/3gon PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3gon ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q8DR49_STRR6 Q8DR49_STRR6]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Phosphomevalonate kinase]]~~	+	[[Category: Streptococcus pneumoniae R6]]
-	~~[[Category: Strr6~~]]	+	[[Category: Andreassi JL]]
-	[[Category: Andreassi~~, J L~~]]	+	[[Category: Bilder PW]]
-	[[Category: Bilder~~, P W~~]]	+	[[Category: Leyh TS]]
-	[[Category: Leyh~~, T S~~]]	+	[[Category: Roderick SL]]
-	[[Category: Roderick~~, S L~~]]	+	[[Category: Vetting MW]]
-	[[Category: Vetting~~, M W]]~~	+
-	~~[[Category: Atp-binding]]~~	+
-	~~[[Category: Ghmp kinase superfamily]]~~	+
-	~~[[Category: Kinase]]~~	+
-	~~[[Category: Nucleotide-binding]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 07:51, 16 March 2022

2022-03-16T07:51:01Z

←Older revision		Revision as of 07:51, 16 March 2022
Line 1:		Line 1:

	==Streptococcus pneumoniae Phosphomevalonate Kinase in Complex with Phosphomevalonate and AMPPNP==		==Streptococcus pneumoniae Phosphomevalonate Kinase in Complex with Phosphomevalonate and AMPPNP==
-	<StructureSection load='3gon' size='340' side='right' caption='[[3gon]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='3gon' size='340' side='right'caption='[[3gon]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3gon]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Strr6 Strr6]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2pg9 2pg9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GON OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3GON FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3gon]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Strr6 Strr6]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2pg9 2pg9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GON OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GON FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PMV:(3R)-3-HYDROXY-3-METHYL-5-(PHOSPHONOOXY)PENTANOIC+ACID'>PMV</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PMV:(3R)-3-HYDROXY-3-METHYL-5-(PHOSPHONOOXY)PENTANOIC+ACID'>PMV</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mvaK2, spr0340 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=171101 STRR6])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mvaK2, spr0340 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=171101 STRR6])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Phosphomevalonate_kinase Phosphomevalonate kinase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.4.2 2.7.4.2] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Phosphomevalonate_kinase Phosphomevalonate kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.4.2 2.7.4.2] </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=3gon FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gon OCA], [~~http~~://pdbe.org/3gon PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3gon RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3gon PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3gon 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=3gon FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gon OCA], [https://pdbe.org/3gon PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3gon RCSB], [https://www.ebi.ac.uk/pdbsum/3gon PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3gon ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 32:		Line 32:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Phosphomevalonate kinase]]		[[Category: Phosphomevalonate kinase]]
	[[Category: Strr6]]		[[Category: Strr6]]

OCA at 05:46, 7 December 2018

2018-12-07T05:46:14Z

←Older revision		Revision as of 05:46, 7 December 2018
Line 13:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/go/3gon_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/go/3gon_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 00:40, 5 August 2016

2016-08-05T00:40:36Z

←Older revision		Revision as of 00:40, 5 August 2016
Line 1:		Line 1:
		+
	==Streptococcus pneumoniae Phosphomevalonate Kinase in Complex with Phosphomevalonate and AMPPNP==		==Streptococcus pneumoniae Phosphomevalonate Kinase in Complex with Phosphomevalonate and AMPPNP==
	<StructureSection load='3gon' size='340' side='right' caption='[[3gon]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='3gon' size='340' side='right' caption='[[3gon]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3gon]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Streptococcus_pneumoniae_r6 Streptococcus pneumoniae r6~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2pg9 2pg9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GON OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GON FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3gon]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Strr6 Strr6]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2pg9 2pg9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GON OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GON FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PMV:(3R)-3-HYDROXY-3-METHYL-5-(PHOSPHONOOXY)PENTANOIC+ACID'>PMV</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PMV:(3R)-3-HYDROXY-3-METHYL-5-(PHOSPHONOOXY)PENTANOIC+ACID'>PMV</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mvaK2, spr0340 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=171101 ~~Streptococcus pneumoniae R6~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mvaK2, spr0340 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=171101 STRR6])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphomevalonate_kinase Phosphomevalonate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.4.2 2.7.4.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphomevalonate_kinase Phosphomevalonate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.4.2 2.7.4.2] </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=3gon FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gon OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3gon RCSB], [http://www.ebi.ac.uk/pdbsum/3gon 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=3gon FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gon OCA], [http://pdbe.org/3gon PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3gon RCSB], [http://www.ebi.ac.uk/pdbsum/3gon PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3gon ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 16:		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=3gon ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 26:		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 3gon" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
Line 31:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Phosphomevalonate kinase]]		[[Category: Phosphomevalonate kinase]]
-	[[Category: ~~Streptococcus pneumoniae r6~~]]	+	[[Category: Strr6]]
	[[Category: Andreassi, J L]]		[[Category: Andreassi, J L]]
	[[Category: Bilder, P W]]		[[Category: Bilder, P W]]

OCA at 06:12, 18 December 2014

2014-12-18T06:12:30Z

←Older revision		Revision as of 06:12, 18 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3gon~~\| ~~PDB~~=3gon \| ~~SCENE~~= }}	+	==Streptococcus pneumoniae Phosphomevalonate Kinase in Complex with Phosphomevalonate and AMPPNP==
-	===Streptococcus pneumoniae Phosphomevalonate ~~Kinase in Complex~~ with ~~Phosphomevalonate~~ and ~~AMPPNP~~===	+	<StructureSection load='3gon' size='340' side='right' caption='[[3gon]], [[Resolution\|resolution]] 1.90Å' scene=''>
-	~~{{ABSTRACT_PUBMED_19485344}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3gon]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptococcus_pneumoniae_r6 Streptococcus pneumoniae r6]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2pg9 2pg9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GON OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GON FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PMV:(3R)-3-HYDROXY-3-METHYL-5-(PHOSPHONOOXY)PENTANOIC+ACID'>PMV</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mvaK2, spr0340 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=171101 Streptococcus pneumoniae R6])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphomevalonate_kinase Phosphomevalonate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.4.2 2.7.4.2] </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=3gon FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gon OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3gon RCSB], [http://www.ebi.ac.uk/pdbsum/3gon 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/go/3gon_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 galacto-, homoserine-, mevalonate-, phosphomevalonate-kinase (GHMP) superfamily encompases a wide-range of protein function. Three members of the family (mevalonate kinase, phosphomevalonate kinase, and diphosphomevalonate decarboxylase) comprise the mevalonate pathway found in S. pneumoniae and other organisms. We have determined the 1.9 A crystal structure of phosphomevalonate kinase (PMK) from S. pneumoniae in complex with phosphomevalonate and AMPPNP.Mg(2+). Comparison of the apo and ternary PMK structures suggests that ligand binding reverses the side-chain orientations of two antiparallel lysines residues (100 and 101) with the result that Lys101 is switched into a position in which its ammonium ion is in direct contact with the beta,gamma-bridging atom of the nucleotide, where it is expected to stabilize both the ground and transition states of the reaction. Analysis of all available GHMP kinase ternary complex structures reveals that while their C(alpha)-scaffolds are highly conserved, their substrates bind in one of two conformations, which appear to be either reactive or nonreactive. The active site of PMK seems spacious enough to accommodate interconversion of the reactive and nonreactive conformers. A substantial fraction of the PMK active site is occupied by ordered water, which clusters near the charged regions of the substrate. Notably, a water pentamer that interacts extensively with the reactive groups of both substrates was discovered at the active site.

-	~~==About this~~ Structure==	+	Structure of the ternary complex of phosphomevalonate kinase: the enzyme and its family.,Andreassi JL 2nd, Vetting MW, Bilder PW, Roderick SL, Leyh TS Biochemistry. 2009 Jul 14;48(27):6461-8. PMID:19485344<ref>PMID:19485344</ref>
-	~~[[3gon]] is a 1 chain structure with sequence from [http~~:~~//en.wikipedia.org/wiki/Streptococcus_pneumoniae_r6 Streptococcus pneumoniae r6]. This structure supersedes~~ the ~~now removed PDB entries~~ and ~~[http://oca~~.~~weizmann~~.~~ac.il/oca~~-~~bin/send-pdb?obs=1&id=2pg9 2pg9]~~. ~~Full crystallographic information is available from [http~~:/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3GON OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	<~~ref group="xtra">PMID:019485344<~~/~~ref~~><~~references group="xtra"~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Phosphomevalonate kinase]]		[[Category: Phosphomevalonate kinase]]
	[[Category: Streptococcus pneumoniae r6]]		[[Category: Streptococcus pneumoniae r6]]
-	[[Category: Andreassi, J L.]]	+	[[Category: Andreassi, J L]]
-	[[Category: Bilder, P W.]]	+	[[Category: Bilder, P W]]
-	[[Category: Leyh, T S.]]	+	[[Category: Leyh, T S]]
-	[[Category: Roderick, S L.]]	+	[[Category: Roderick, S L]]
-	[[Category: Vetting, M W.]]	+	[[Category: Vetting, M W]]
	[[Category: Atp-binding]]		[[Category: Atp-binding]]
	[[Category: Ghmp kinase superfamily]]		[[Category: Ghmp kinase superfamily]]

OCA at 09:16, 13 March 2013

2013-03-13T09:16:38Z

←Older revision		Revision as of 09:16, 13 March 2013
Line 1:		Line 1:
-	[[Image:3gon.png\|left\|200px]]
-
	{{STRUCTURE_3gon\| PDB=3gon \| SCENE= }}		{{STRUCTURE_3gon\| PDB=3gon \| SCENE= }}
-
	===Streptococcus pneumoniae Phosphomevalonate Kinase in Complex with Phosphomevalonate and AMPPNP===		===Streptococcus pneumoniae Phosphomevalonate Kinase in Complex with Phosphomevalonate and AMPPNP===
-
	{{ABSTRACT_PUBMED_19485344}}		{{ABSTRACT_PUBMED_19485344}}

	==About this Structure==		==About this Structure==
-	[[3gon]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Streptococcus_pneumoniae~~ Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GON OCA].	+	[[3gon]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptococcus_pneumoniae_r6 Streptococcus pneumoniae r6]. This structure supersedes the now removed PDB entries and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2pg9 2pg9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GON OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:019485344</ref><references group="xtra"/>		<ref group="xtra">PMID:019485344</ref><references group="xtra"/>
	[[Category: Phosphomevalonate kinase]]		[[Category: Phosphomevalonate kinase]]
-	[[Category: Streptococcus pneumoniae]]	+	[[Category: Streptococcus pneumoniae r6]]
	[[Category: Andreassi, J L.]]		[[Category: Andreassi, J L.]]
	[[Category: Bilder, P W.]]		[[Category: Bilder, P W.]]

OCA: Protected "3gon" [edit=sysop:move=sysop]

2013-02-27T15:20:44Z

Protected "3gon" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:20, 27 February 2013

OCA at 15:20, 27 February 2013

2013-02-27T15:20:41Z

←Older revision		Revision as of 15:20, 27 February 2013
Line 1:		Line 1:
-	~~{{Seed}}~~	+	[[Image:3gon.png\|left\|200px]]
-	[[Image:3gon.~~jpg~~\|left\|200px]]	+

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3gon", 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_3gon\| PDB=3gon \| SCENE= }}		{{STRUCTURE_3gon\| PDB=3gon \| SCENE= }}

	===Streptococcus pneumoniae Phosphomevalonate Kinase in Complex with Phosphomevalonate and AMPPNP===		===Streptococcus pneumoniae Phosphomevalonate Kinase in Complex with Phosphomevalonate and AMPPNP===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19485344}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19485344 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_19485344}}		{{ABSTRACT_PUBMED_19485344}}

	==About this Structure==		==About this Structure==
-	~~3GON~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GON OCA].	+	[[3gon]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GON OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19485344~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019485344</ref><references group="xtra"/>
	[[Category: Phosphomevalonate kinase]]		[[Category: Phosphomevalonate kinase]]
	[[Category: Streptococcus pneumoniae]]		[[Category: Streptococcus pneumoniae]]
Line 36:		Line 24:
	[[Category: Nucleotide-binding]]		[[Category: Nucleotide-binding]]
	[[Category: Transferase]]		[[Category: Transferase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 22 20:38:05 2009''

OCA at 17:38, 22 July 2009

2009-07-22T17:38:07Z

←Older revision		Revision as of 17:38, 22 July 2009
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3gon.jpg\|left\|200px]]

-	The ~~entry 3gon~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3gon", 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_3gon\| PDB=3gon \| SCENE= }}

-	~~Authors: Andreassi, J.L., Bilder, P.W., Vetting, M.W., Roderick, S.L., Leyh, T.S.~~	+	===Streptococcus pneumoniae Phosphomevalonate Kinase in Complex with Phosphomevalonate and AMPPNP===

-	Description: Streptococcus pneumoniae Phosphomevalonate Kinase in Complex with Phosphomevalonate and AMPPNP

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Apr 15 09~~:55:31 2009''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19485344}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19485344 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19485344}}
		+
		+	==About this Structure==
		+	3GON is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GON OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:19485344</ref><references group="xtra"/>
		+	[[Category: Phosphomevalonate kinase]]
		+	[[Category: Streptococcus pneumoniae]]
		+	[[Category: Andreassi, J L.]]
		+	[[Category: Bilder, P W.]]
		+	[[Category: Leyh, T S.]]
		+	[[Category: Roderick, S L.]]
		+	[[Category: Vetting, M W.]]
		+	[[Category: Atp-binding]]
		+	[[Category: Ghmp kinase superfamily]]
		+	[[Category: Kinase]]
		+	[[Category: Nucleotide-binding]]
		+	[[Category: Transferase]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 22 20:38:05 2009''

OCA at 06:55, 15 April 2009

2009-04-15T06:55:31Z

←Older revision		Revision as of 06:55, 15 April 2009
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3gon is ON HOLD	+	The entry 3gon is ON HOLD until Paper Publication

-	Authors: Andreassi,J.L., ~~Vetting~~,M.W., ~~Bilder~~,P.W., Roderick,S.L., Leyh,T.S.	+	Authors: Andreassi, J.L., Bilder, P.W., Vetting, M.W., Roderick, S.L., Leyh, T.S.

	Description: Streptococcus pneumoniae Phosphomevalonate Kinase in Complex with Phosphomevalonate and AMPPNP		Description: Streptococcus pneumoniae Phosphomevalonate Kinase in Complex with Phosphomevalonate and AMPPNP

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Mar 25 12~~:18:59 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Apr 15 09:55:31 2009''