3hcx - Revision history

OCA at 13:09, 30 August 2023

2023-08-30T13:09:15Z

←Older revision		Revision as of 13:09, 30 August 2023
Line 3:		Line 3:
	<StructureSection load='3hcx' size='340' side='right'caption='[[3hcx]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='3hcx' size='340' side='right'caption='[[3hcx]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3hcx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Ecoli Ecoli~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HCX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HCX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3hcx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HCX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HCX FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=TRS:2~~-~~AMINO-2-HYDROXYMETHYL-PROPANE-1~~,~~3-DIOL'>TRS</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]] 1.75Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[1hka\|1hka]], [[3hd1\|3hd1]], [[3hd2\|3hd2]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>b0142, foIK, folK, JW0138 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~83333 ECOLI])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks'>[https~~:~~//en.wikipedia.org/wiki/~~2-~~amino~~-~~4-hydroxy-6-hydroxymethyldihydropteridine_diphosphokinase~~ 2-~~amino~~-4-~~hydroxy-6-hydroxymethyldihydropteridine diphosphokinase]~~, ~~with EC number [https://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=2.7.6.3 2.7.6.3]~~ </~~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=3hcx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hcx OCA], [https://pdbe.org/3hcx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hcx RCSB], [https://www.ebi.ac.uk/pdbsum/3hcx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hcx 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=3hcx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hcx OCA], [https://pdbe.org/3hcx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hcx RCSB], [https://www.ebi.ac.uk/pdbsum/3hcx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hcx ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/HPPK_ECOLI HPPK_ECOLI]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3hcx 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=3hcx ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	BACKGROUND: Folate cofactors are essential for life. Mammals derive folates from their diet, whereas most microorganisms must synthesize folates de novo. Enzymes of the folate pathway therefore provide ideal targets for the development of antimicrobial agents. 6-Hydroxymethyl-7,8-dihydropterin pyrophosphokinase (HPPK) catalyzes the transfer of pyrophosphate from ATP to 6-hydroxymethyl-7,8-dihydropterin (HP), the first reaction in the folate biosynthetic pathway. RESULTS: The crystal structure of HPPK from Escherichia coli has been determined at 1.5 A resolution with a crystallographic R factor of 0.182. The HPPK molecule has a novel three-layered alpha beta alpha fold that creates a valley approximately 26 A long, 10 A wide and 10 A deep. The active center of HPPK is located in the valley and the substrate-binding sites have been identified with the aid of NMR spectroscopy. The HP-binding site is located at one end of the valley, near Asn55, and is sandwiched between two aromatic sidechains. The ATP-binding site is located at the other end of the valley. The adenine base of ATP is positioned near Leu111 and the ribose and the triphosphate extend across and reach the vicinity of HP. CONCLUSIONS: The HPPK structure provides a framework to elucidate structure/function relationships of the enzyme and to analyze mechanisms of pyrophosphoryl transfer. Furthermore, this work may prove useful in the structure-based design of new antimicrobial agents.
-
-	Crystal structure of 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, a potential target for the development of novel antimicrobial agents.,Xiao B, Shi G, Chen X, Yan H, Ji X Structure. 1999 May;7(5):489-96. PMID:10378268<ref>PMID:10378268</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3hcx" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[HPPK 3D structures\|HPPK 3D structures]]		*[[HPPK 3D structures\|HPPK 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: 2-~~amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase]]~~	+	[[Category: Escherichia coli K-12]]
-	~~[[Category: Ecoli~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Blaszczyk, J]]	+	[[Category: Blaszczyk J]]
-	[[Category: Ji, X]]	+	[[Category: Ji X]]
-	[[Category: Li, Y]]	+	[[Category: Li Y]]
-	[[Category: Yan, H]]	+	[[Category: Yan H]]
-	~~[[Category: Alpha beta]]~~	+
-	~~[[Category: Atp-binding]]~~	+
-	~~[[Category: Folate biosynthesis]]~~	+
-	~~[[Category: Kinase]]~~	+
-	~~[[Category: Nucleotide-binding]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 11:58, 13 October 2021

2021-10-13T11:58:04Z

←Older revision		Revision as of 11:58, 13 October 2021
Line 1:		Line 1:

	==Crystal structure of E. coli HPPK(N10A)==		==Crystal structure of E. coli HPPK(N10A)==
-	<StructureSection load='3hcx' size='340' side='right' caption='[[3hcx]], [[Resolution\|resolution]] 1.75Å' scene=''>	+	<StructureSection load='3hcx' size='340' side='right'caption='[[3hcx]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3hcx]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HCX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3HCX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3hcx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HCX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HCX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hka\|1hka]], [[3hd1\|3hd1]], [[3hd2\|3hd2]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1hka\|1hka]], [[3hd1\|3hd1]], [[3hd2\|3hd2]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0142, foIK, folK, JW0138 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0142, foIK, folK, JW0138 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_diphosphokinase 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.6.3 2.7.6.3] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_diphosphokinase 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.6.3 2.7.6.3] </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=3hcx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hcx OCA], [~~http~~://pdbe.org/3hcx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3hcx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3hcx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3hcx 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=3hcx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hcx OCA], [https://pdbe.org/3hcx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hcx RCSB], [https://www.ebi.ac.uk/pdbsum/3hcx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hcx ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 14:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/hc/3hcx_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/hc/3hcx_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 29:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 3hcx" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3hcx" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[HPPK 3D structures\|HPPK 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 35:		Line 38:
	[[Category: 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase]]		[[Category: 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase]]
	[[Category: Ecoli]]		[[Category: Ecoli]]
		+	[[Category: Large Structures]]
	[[Category: Blaszczyk, J]]		[[Category: Blaszczyk, J]]
	[[Category: Ji, X]]		[[Category: Ji, X]]

OCA at 07:29, 1 November 2017

2017-11-01T07:29:05Z

←Older revision		Revision as of 07:29, 1 November 2017
Line 29:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 3hcx" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3hcx" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[6-hydroxymethyl-7%2C8-dihydropterin pyrophosphokinase\|6-hydroxymethyl-7%2C8-dihydropterin pyrophosphokinase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 20:24, 9 December 2016

2016-12-09T20:24:51Z

←Older revision		Revision as of 20:24, 9 December 2016
Line 1:		Line 1:
		+
	==Crystal structure of E. coli HPPK(N10A)==		==Crystal structure of E. coli HPPK(N10A)==
	<StructureSection load='3hcx' size='340' side='right' caption='[[3hcx]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='3hcx' size='340' side='right' caption='[[3hcx]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3hcx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Escherichia_coli_k-12 Escherichia coli k-12~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HCX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3HCX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3hcx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HCX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3HCX FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hka\|1hka]], [[3hd1\|3hd1]], [[3hd2\|3hd2]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hka\|1hka]], [[3hd1\|3hd1]], [[3hd2\|3hd2]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0142, foIK, folK, JW0138 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ~~Escherichia coli K-12~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0142, foIK, folK, JW0138 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_diphosphokinase 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.6.3 2.7.6.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_diphosphokinase 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.6.3 2.7.6.3] </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=3hcx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hcx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3hcx RCSB], [http://www.ebi.ac.uk/pdbsum/3hcx 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=3hcx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hcx OCA], [http://pdbe.org/3hcx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3hcx RCSB], [http://www.ebi.ac.uk/pdbsum/3hcx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3hcx ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 17:		Line 18:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3hcx ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 27:		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 3hcx" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase]]		[[Category: 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase]]
-	[[Category: ~~Escherichia coli k-12~~]]	+	[[Category: Ecoli]]
	[[Category: Blaszczyk, J]]		[[Category: Blaszczyk, J]]
	[[Category: Ji, X]]		[[Category: Ji, X]]

OCA at 08:53, 8 December 2014

2014-12-08T08:53:00Z

←Older revision		Revision as of 08:53, 8 December 2014
Line 1:		Line 1:
-	~~{{Seed}}~~	+	==Crystal structure of E. coli HPPK(N10A)==
-	[[~~Image:~~3hcx.~~jpg~~\|~~left~~\|200px]]	+	<StructureSection load='3hcx' size='340' side='right' caption='[[3hcx]], [[Resolution\|resolution]] 1.75Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3hcx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli_k-12 Escherichia coli k-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HCX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3HCX FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hka\|1hka]], [[3hd1\|3hd1]], [[3hd2\|3hd2]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0142, foIK, folK, JW0138 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 Escherichia coli K-12])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_diphosphokinase 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.6.3 2.7.6.3] </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=3hcx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hcx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3hcx RCSB], [http://www.ebi.ac.uk/pdbsum/3hcx 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/hc/3hcx_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 ==
		+	BACKGROUND: Folate cofactors are essential for life. Mammals derive folates from their diet, whereas most microorganisms must synthesize folates de novo. Enzymes of the folate pathway therefore provide ideal targets for the development of antimicrobial agents. 6-Hydroxymethyl-7,8-dihydropterin pyrophosphokinase (HPPK) catalyzes the transfer of pyrophosphate from ATP to 6-hydroxymethyl-7,8-dihydropterin (HP), the first reaction in the folate biosynthetic pathway. RESULTS: The crystal structure of HPPK from Escherichia coli has been determined at 1.5 A resolution with a crystallographic R factor of 0.182. The HPPK molecule has a novel three-layered alpha beta alpha fold that creates a valley approximately 26 A long, 10 A wide and 10 A deep. The active center of HPPK is located in the valley and the substrate-binding sites have been identified with the aid of NMR spectroscopy. The HP-binding site is located at one end of the valley, near Asn55, and is sandwiched between two aromatic sidechains. The ATP-binding site is located at the other end of the valley. The adenine base of ATP is positioned near Leu111 and the ribose and the triphosphate extend across and reach the vicinity of HP. CONCLUSIONS: The HPPK structure provides a framework to elucidate structure/function relationships of the enzyme and to analyze mechanisms of pyrophosphoryl transfer. Furthermore, this work may prove useful in the structure-based design of new antimicrobial agents.

-	<!--	+	Crystal structure of 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, a potential target for the development of novel antimicrobial agents.,Xiao B, Shi G, Chen X, Yan H, Ji X Structure. 1999 May;7(5):489-96. PMID:10378268<ref>PMID:10378268</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_3hcx"~~, ~~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_3hcx\| PDB=3hcx \| SCENE= }}~~	+

-	~~===Crystal structure~~ of E. ~~coli HPPK(N10A)===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-		+	==See Also==
-	==~~About this Structure~~==	+	*[[6-hydroxymethyl-7%2C8-dihydropterin pyrophosphokinase\|6-hydroxymethyl-7%2C8-dihydropterin pyrophosphokinase]]
-	~~3HCX is a 1 chain structure with sequence from~~ [~~http://en.wikipedia.org/wiki/Escherichia_coli_k~~-~~12 Escherichia coli k~~-~~12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca~~-~~bin/ocashort?id=3HCX OCA~~].	+	== References ==
-		+	<references/>
-	==~~Reference~~==	+	__TOC__
-	<~~ref group="xtra">PMID:10378268<~~/~~ref~~><~~references group="xtra"~~/>	+	</StructureSection>
	[[Category: 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase]]		[[Category: 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase]]
	[[Category: Escherichia coli k-12]]		[[Category: Escherichia coli k-12]]
-	[[Category: Blaszczyk, J.]]	+	[[Category: Blaszczyk, J]]
-	[[Category: Ji, X.]]	+	[[Category: Ji, X]]
-	[[Category: Li, Y.]]	+	[[Category: Li, Y]]
-	[[Category: Yan, H.]]	+	[[Category: Yan, H]]
	[[Category: Alpha beta]]		[[Category: Alpha beta]]
	[[Category: Atp-binding]]		[[Category: Atp-binding]]
Line 30:		Line 46:
	[[Category: Nucleotide-binding]]		[[Category: Nucleotide-binding]]
	[[Category: Transferase]]		[[Category: Transferase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu May 20 09:46:12 2010''

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

2013-03-06T14:48:04Z

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

←Older revision

Revision as of 14:48, 6 March 2013

OCA at 06:46, 20 May 2010

2010-05-20T06:46:14Z

←Older revision		Revision as of 06:46, 20 May 2010
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3hcx.jpg\|left\|200px]]

-	The ~~entry 3hcx~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3hcx", 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_3hcx\| PDB=3hcx \| SCENE= }}

-	~~Authors: Blaszczyk, J., Li, Y., Yan, H., Ji, X~~.	+	===Crystal structure of E. coli HPPK(N10A)===

-	Description: Crystal structure of E. coli HPPK(N10A)

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed~~ May 20 16:39:~~32 2009~~''	+	==About this Structure==
		+	3HCX is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli_k-12 Escherichia coli k-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HCX OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:10378268</ref><references group="xtra"/>
		+	[[Category: 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase]]
		+	[[Category: Escherichia coli k-12]]
		+	[[Category: Blaszczyk, J.]]
		+	[[Category: Ji, X.]]
		+	[[Category: Li, Y.]]
		+	[[Category: Yan, H.]]
		+	[[Category: Alpha beta]]
		+	[[Category: Atp-binding]]
		+	[[Category: Folate biosynthesis]]
		+	[[Category: Kinase]]
		+	[[Category: Nucleotide-binding]]
		+	[[Category: Transferase]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu May 20 09:46:12 2010''

OCA at 13:39, 20 May 2009

2009-05-20T13:39:33Z

←Older revision		Revision as of 13:39, 20 May 2009
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

-	Authors: Blaszczyk, J., Li, Y., Ji, X., ~~Yan~~, H.	+	Authors: Blaszczyk, J., Li, Y., Yan, H., Ji, X.

	Description: Crystal structure of E. coli HPPK(N10A)		Description: Crystal structure of E. coli HPPK(N10A)

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May ~~13 09~~:38:24 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May 20 16:39:32 2009''

OCA: New page: '''Unreleased structure''' The entry 3hcx is ON HOLD Authors: Blaszczyk, J., Li, Y., Ji, X., Yan, H. Description: Crystal structure of E. coli HPPK(N10A) ''Page seeded by [http://oca....

2009-05-13T06:38:24Z

New page: '''Unreleased structure''' The entry 3hcx is ON HOLD Authors: Blaszczyk, J., Li, Y., Ji, X., Yan, H. Description: Crystal structure of E. coli HPPK(N10A) ''Page seeded by [http://oca....

New page

'''Unreleased structure'''

The entry 3hcx is ON HOLD

Authors: Blaszczyk, J., Li, Y., Ji, X., Yan, H.

Description: Crystal structure of E. coli HPPK(N10A)

''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May 13 09:38:24 2009''