1dqp - Revision history

OCA at 06:57, 7 February 2024

OCA — Wed, 07 Feb 2024 06:57:55 GMT

←Older revision		Revision as of 06:57, 7 February 2024
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	<StructureSection load='1dqp' size='340' side='right'caption='[[1dqp]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='1dqp' size='340' side='right'caption='[[1dqp]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1dqp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Giain Giain~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DQP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DQP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1dqp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Giardia_intestinalis Giardia intestinalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DQP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DQP FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=IMG:1,4~~-~~DIDEOXY-1~~,~~4-IMINO-~~1~~-(S)-(9-DEAZAGUANIN-9-YL)-D-RIBITOL'>IMG</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</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;~~'>~~[[1dqn\|1dqn]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IMG:1,4-DIDEOXY-1,4-IMINO-1-(S)-(9-DEAZAGUANIN-9-YL)-D-RIBITOL'>IMG</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>[https://en.wikipedia.org/wiki/Hypoxanthine_phosphoribosyltransferase Hypoxanthine phosphoribosyltransferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.8 2.4.2.8] </~~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=1dqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dqp OCA], [https://pdbe.org/1dqp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dqp RCSB], [https://www.ebi.ac.uk/pdbsum/1dqp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dqp 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=1dqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dqp OCA], [https://pdbe.org/1dqp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dqp RCSB], [https://www.ebi.ac.uk/pdbsum/1dqp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dqp ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q24973_GIAIN Q24973_GIAIN]
	== 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=1dqp 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=1dqp ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Giardia lamblia, the protozoan parasite responsible for giardiasis, requires purine salvage from its host for RNA and DNA synthesis. G. lamblia expresses an unusual purine phosphoribosyltransferase with a high specificity for guanine (GPRTase). The enzyme's sequence significantly diverges from those of related enzymes in other organisms. The transition state analogue immucillinGP is a powerful inhibitor of HGXPRTase from malaria [Li, C. M., et al. (1999) Nat. Struct. Biol. 6, 582-587] and is also a 10 nM inhibitor of G. lamblia GPRTase. Cocrystallization of GPRTase with immucillinGP led unexpectedly to a GPRTase.immucillinG binary complex with an open catalytic site loop. Diffusion of ligands into preformed crystals gave a GPRTase.immucillinGP.Mg(2+).pyrophosphate complex in which the open loop is stabilized by crystal contacts. G. lamblia GPRTase exhibits substantial structural differences from known purine phosphoribosyltransferases at positions remote from the catalytic site, but conserves most contacts to the bound inhibitor. The filled catalytic site with an open catalytic loop provides insight into ligand binding. One active site Mg(2+) ion is chelated to pyrophosphate, but the other is chelated to two conserved catalytic site carboxylates, suggesting a role for these amino acids. This arrangement of Mg(2+) and pyrophosphate has not been reported in purine phosphoribosyltransferases. ImmucillinG in the binary complex is anchored by its 9-deazaguanine group, and the iminoribitol is disordered. No Mg(2+) or pyrophosphate is detected; thus, the 5'-phosphoryl group is needed to immobilize the iminoribitol prior to magnesium pyrophosphate binding. Filling the catalytic site involves (1) binding the purine ring, (2) anchoring the 5'-phosphate to fix the ribosyl group, (3) binding the first Mg(2+) to Asp125 and Glu126 carboxyl groups and binding Mg(2+).pyrophosphate, and (4) closing the catalytic site loop and formation of bound (Mg(2+))(2). pyrophosphate prior to catalysis. Guanine specificity is provided by two peptide carbonyl oxygens hydrogen-bonded to the exocyclic amino group and a weak interaction to O6. Transition state formation involves N7 protonation by Asp129 acting as the general acid.
-
-	Crystal structures of Giardia lamblia guanine phosphoribosyltransferase at 1.75 A(,).,Shi W, Munagala NR, Wang CC, Li CM, Tyler PC, Furneaux RH, Grubmeyer C, Schramm VL, Almo SC Biochemistry. 2000 Jun 13;39(23):6781-90. PMID:10841757<ref>PMID:10841757</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1dqp" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Phosphoribosyltransferase 3D structures\|Phosphoribosyltransferase 3D structures]]		*[[Phosphoribosyltransferase 3D structures\|Phosphoribosyltransferase 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Giain]]~~	+	[[Category: Giardia intestinalis]]
-	~~[[Category: Hypoxanthine phosphoribosyltransferase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Almo~~, S C~~]]	+	[[Category: Almo SC]]
-	[[Category: Furneaux~~, R H~~]]	+	[[Category: Furneaux RH]]
-	[[Category: Grubmeyer, C]]	+	[[Category: Grubmeyer C]]
-	[[Category: Li~~, C M~~]]	+	[[Category: Li CM]]
-	[[Category: Munagala~~, N R~~]]	+	[[Category: Munagala NR]]
-	[[Category: Schramm~~, V L~~]]	+	[[Category: Schramm VL]]
-	[[Category: Shi, W]]	+	[[Category: Shi W]]
-	[[Category: Tyler~~, P C~~]]	+	[[Category: Tyler PC]]
-	[[Category: Wang~~, C C]]~~	+	[[Category: Wang CC]]
-	~~[[Category: 9-deazaguanine]]~~	+
-	~~[[Category: Immucilling]]~~	+
-	~~[[Category: Protein-inhibitor complex]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 09:30, 21 July 2021

OCA — Wed, 21 Jul 2021 09:30:13 GMT

←Older revision		Revision as of 09:30, 21 July 2021
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	<StructureSection load='1dqp' size='340' side='right'caption='[[1dqp]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='1dqp' size='340' side='right'caption='[[1dqp]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1dqp]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Giain Giain]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DQP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1DQP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1dqp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Giain Giain]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DQP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DQP FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IMG:1,4-DIDEOXY-1,4-IMINO-1-(S)-(9-DEAZAGUANIN-9-YL)-D-RIBITOL'>IMG</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IMG:1,4-DIDEOXY-1,4-IMINO-1-(S)-(9-DEAZAGUANIN-9-YL)-D-RIBITOL'>IMG</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dqn\|1dqn]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1dqn\|1dqn]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Hypoxanthine_phosphoribosyltransferase Hypoxanthine phosphoribosyltransferase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.8 2.4.2.8] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Hypoxanthine_phosphoribosyltransferase Hypoxanthine phosphoribosyltransferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.8 2.4.2.8] </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=1dqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dqp OCA], [~~http~~://pdbe.org/1dqp PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1dqp RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1dqp PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1dqp 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=1dqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dqp OCA], [https://pdbe.org/1dqp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dqp RCSB], [https://www.ebi.ac.uk/pdbsum/1dqp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dqp ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 30:		Line 30:

	==See Also==		==See Also==
-	*[[Phosphoribosyltransferase\|Phosphoribosyltransferase]]	+	*[[Phosphoribosyltransferase 3D structures\|Phosphoribosyltransferase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 08:43, 16 October 2019

OCA — Wed, 16 Oct 2019 08:43:32 GMT

←Older revision		Revision as of 08:43, 16 October 2019
Line 1:		Line 1:

	==CRYSTAL STRUCTURE OF GIARDIA GUANINE PHOSPHORIBOSYLTRANSFERASE COMPLEXED WITH IMMUCILLING==		==CRYSTAL STRUCTURE OF GIARDIA GUANINE PHOSPHORIBOSYLTRANSFERASE COMPLEXED WITH IMMUCILLING==
-	<StructureSection load='1dqp' size='340' side='right' caption='[[1dqp]], [[Resolution\|resolution]] 1.75Å' scene=''>	+	<StructureSection load='1dqp' size='340' side='right'caption='[[1dqp]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1dqp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Giain Giain]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DQP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DQP FirstGlance]. <br>		<table><tr><td colspan='2'>[[1dqp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Giain Giain]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DQP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DQP FirstGlance]. <br>
Line 28:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 1dqp" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1dqp" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Phosphoribosyltransferase\|Phosphoribosyltransferase]]
	== References ==		== References ==
	<references/>		<references/>
Line 34:		Line 37:
	[[Category: Giain]]		[[Category: Giain]]
	[[Category: Hypoxanthine phosphoribosyltransferase]]		[[Category: Hypoxanthine phosphoribosyltransferase]]
		+	[[Category: Large Structures]]
	[[Category: Almo, S C]]		[[Category: Almo, S C]]
	[[Category: Furneaux, R H]]		[[Category: Furneaux, R H]]

OCA at 07:47, 13 December 2017

OCA — Wed, 13 Dec 2017 07:47:32 GMT

←Older revision		Revision as of 07:47, 13 December 2017
Line 1:		Line 1:
		+
	==CRYSTAL STRUCTURE OF GIARDIA GUANINE PHOSPHORIBOSYLTRANSFERASE COMPLEXED WITH IMMUCILLING==		==CRYSTAL STRUCTURE OF GIARDIA GUANINE PHOSPHORIBOSYLTRANSFERASE COMPLEXED WITH IMMUCILLING==
	<StructureSection load='1dqp' size='340' side='right' caption='[[1dqp]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='1dqp' size='340' side='right' caption='[[1dqp]], [[Resolution\|resolution]] 1.75Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dqn\|1dqn]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dqn\|1dqn]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Hypoxanthine_phosphoribosyltransferase Hypoxanthine phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.8 2.4.2.8] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Hypoxanthine_phosphoribosyltransferase Hypoxanthine phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.8 2.4.2.8] </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=1dqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dqp OCA], [http://pdbe.org/1dqp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1dqp RCSB], [http://www.ebi.ac.uk/pdbsum/1dqp 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=1dqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dqp OCA], [http://pdbe.org/1dqp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1dqp RCSB], [http://www.ebi.ac.uk/pdbsum/1dqp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1dqp ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 12:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dq/1dqp_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dq/1dqp_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 27:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 1dqp" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1dqp" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Phosphoribosyltransferase\|Phosphoribosyltransferase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:04, 8 February 2016

OCA — Mon, 08 Feb 2016 07:04:49 GMT

←Older revision		Revision as of 07:04, 8 February 2016
Line 16:		Line 16:
	<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=1dqp ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 09:05, 10 September 2015

OCA — Thu, 10 Sep 2015 09:05:51 GMT

←Older revision		Revision as of 09:05, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1dqp' size='340' side='right' caption='[[1dqp]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='1dqp' size='340' side='right' caption='[[1dqp]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1dqp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Giardia_intestinalis Giardia intestinalis~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DQP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DQP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1dqp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Giain Giain]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DQP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DQP FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IMG:1,4-DIDEOXY-1,4-IMINO-1-(S)-(9-DEAZAGUANIN-9-YL)-D-RIBITOL'>IMG</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IMG:1,4-DIDEOXY-1,4-IMINO-1-(S)-(9-DEAZAGUANIN-9-YL)-D-RIBITOL'>IMG</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dqn\|1dqn]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dqn\|1dqn]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Hypoxanthine_phosphoribosyltransferase Hypoxanthine phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.8 2.4.2.8] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Hypoxanthine_phosphoribosyltransferase Hypoxanthine phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.8 2.4.2.8] </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=1dqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dqp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dqp RCSB], [http://www.ebi.ac.uk/pdbsum/1dqp 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=1dqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dqp OCA], [http://pdbe.org/1dqp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1dqp RCSB], [http://www.ebi.ac.uk/pdbsum/1dqp PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 26:		Line 26:
	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 1dqp" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Giardia intestinalis~~]]	+	[[Category: Giain]]
	[[Category: Hypoxanthine phosphoribosyltransferase]]		[[Category: Hypoxanthine phosphoribosyltransferase]]
	[[Category: Almo, S C]]		[[Category: Almo, S C]]

OCA at 00:06, 23 December 2014

OCA — Tue, 23 Dec 2014 00:06:44 GMT

←Older revision		Revision as of 00:06, 23 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1dqp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Giardia_intestinalis Giardia intestinalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DQP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DQP FirstGlance]. <br>		<table><tr><td colspan='2'>[[1dqp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Giardia_intestinalis Giardia intestinalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DQP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DQP FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IMG:1,4-DIDEOXY-1,4-IMINO-1-(S)-(9-DEAZAGUANIN-9-YL)-D-RIBITOL'>IMG</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IMG:1,4-DIDEOXY-1,4-IMINO-1-(S)-(9-DEAZAGUANIN-9-YL)-D-RIBITOL'>IMG</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dqn\|1dqn]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dqn\|1dqn]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Hypoxanthine_phosphoribosyltransferase Hypoxanthine phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.8 2.4.2.8] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Hypoxanthine_phosphoribosyltransferase Hypoxanthine phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.8 2.4.2.8] </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=1dqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dqp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dqp RCSB], [http://www.ebi.ac.uk/pdbsum/1dqp 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=1dqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dqp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dqp RCSB], [http://www.ebi.ac.uk/pdbsum/1dqp 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 35:		Line 35:
	[[Category: Giardia intestinalis]]		[[Category: Giardia intestinalis]]
	[[Category: Hypoxanthine phosphoribosyltransferase]]		[[Category: Hypoxanthine phosphoribosyltransferase]]
-	[[Category: Almo, S C.]]	+	[[Category: Almo, S C]]
-	[[Category: Furneaux, R H.]]	+	[[Category: Furneaux, R H]]
-	[[Category: Grubmeyer, C.]]	+	[[Category: Grubmeyer, C]]
-	[[Category: Li, C M.]]	+	[[Category: Li, C M]]
-	[[Category: Munagala, N R.]]	+	[[Category: Munagala, N R]]
-	[[Category: Schramm, V L.]]	+	[[Category: Schramm, V L]]
-	[[Category: Shi, W.]]	+	[[Category: Shi, W]]
-	[[Category: Tyler, P C.]]	+	[[Category: Tyler, P C]]
-	[[Category: Wang, C C.]]	+	[[Category: Wang, C C]]
	[[Category: 9-deazaguanine]]		[[Category: 9-deazaguanine]]
	[[Category: Immucilling]]		[[Category: Immucilling]]
	[[Category: Protein-inhibitor complex]]		[[Category: Protein-inhibitor complex]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 10:35, 10 September 2014

OCA — Wed, 10 Sep 2014 10:35:50 GMT

←Older revision		Revision as of 10:35, 10 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1dqp.~~png~~\|~~left~~\|200px]]	+	==CRYSTAL STRUCTURE OF GIARDIA GUANINE PHOSPHORIBOSYLTRANSFERASE COMPLEXED WITH IMMUCILLING==
		+	<StructureSection load='1dqp' size='340' side='right' caption='[[1dqp]], [[Resolution\|resolution]] 1.75Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1dqp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Giardia_intestinalis Giardia intestinalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DQP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DQP FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IMG:1,4-DIDEOXY-1,4-IMINO-1-(S)-(9-DEAZAGUANIN-9-YL)-D-RIBITOL'>IMG</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dqn\|1dqn]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Hypoxanthine_phosphoribosyltransferase Hypoxanthine phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.8 2.4.2.8] </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=1dqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dqp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dqp RCSB], [http://www.ebi.ac.uk/pdbsum/1dqp 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/dq/1dqp_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 ==
		+	Giardia lamblia, the protozoan parasite responsible for giardiasis, requires purine salvage from its host for RNA and DNA synthesis. G. lamblia expresses an unusual purine phosphoribosyltransferase with a high specificity for guanine (GPRTase). The enzyme's sequence significantly diverges from those of related enzymes in other organisms. The transition state analogue immucillinGP is a powerful inhibitor of HGXPRTase from malaria [Li, C. M., et al. (1999) Nat. Struct. Biol. 6, 582-587] and is also a 10 nM inhibitor of G. lamblia GPRTase. Cocrystallization of GPRTase with immucillinGP led unexpectedly to a GPRTase.immucillinG binary complex with an open catalytic site loop. Diffusion of ligands into preformed crystals gave a GPRTase.immucillinGP.Mg(2+).pyrophosphate complex in which the open loop is stabilized by crystal contacts. G. lamblia GPRTase exhibits substantial structural differences from known purine phosphoribosyltransferases at positions remote from the catalytic site, but conserves most contacts to the bound inhibitor. The filled catalytic site with an open catalytic loop provides insight into ligand binding. One active site Mg(2+) ion is chelated to pyrophosphate, but the other is chelated to two conserved catalytic site carboxylates, suggesting a role for these amino acids. This arrangement of Mg(2+) and pyrophosphate has not been reported in purine phosphoribosyltransferases. ImmucillinG in the binary complex is anchored by its 9-deazaguanine group, and the iminoribitol is disordered. No Mg(2+) or pyrophosphate is detected; thus, the 5'-phosphoryl group is needed to immobilize the iminoribitol prior to magnesium pyrophosphate binding. Filling the catalytic site involves (1) binding the purine ring, (2) anchoring the 5'-phosphate to fix the ribosyl group, (3) binding the first Mg(2+) to Asp125 and Glu126 carboxyl groups and binding Mg(2+).pyrophosphate, and (4) closing the catalytic site loop and formation of bound (Mg(2+))(2). pyrophosphate prior to catalysis. Guanine specificity is provided by two peptide carbonyl oxygens hydrogen-bonded to the exocyclic amino group and a weak interaction to O6. Transition state formation involves N7 protonation by Asp129 acting as the general acid.

-	~~{{STRUCTURE_1dqp\| PDB=1dqp \| SCENE= }}~~	+	Crystal structures of Giardia lamblia guanine phosphoribosyltransferase at 1.75 A(,).,Shi W, Munagala NR, Wang CC, Li CM, Tyler PC, Furneaux RH, Grubmeyer C, Schramm VL, Almo SC Biochemistry. 2000 Jun 13;39(23):6781-90. PMID:10841757<ref>PMID:10841757</ref>

-	~~===CRYSTAL STRUCTURE OF GIARDIA GUANINE PHOSPHORIBOSYLTRANSFERASE COMPLEXED WITH IMMUCILLING===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_10841757}}~~	+	==See Also==
-		+	*[[Phosphoribosyltransferase\|Phosphoribosyltransferase]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~1dqp~~]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Giardia_intestinalis Giardia intestinalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DQP OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:010841757<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Giardia intestinalis]]		[[Category: Giardia intestinalis]]
	[[Category: Hypoxanthine phosphoribosyltransferase]]		[[Category: Hypoxanthine phosphoribosyltransferase]]

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

OCA — Wed, 31 Oct 2012 09:48:19 GMT

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

←Older revision

Revision as of 09:48, 31 October 2012

OCA at 09:48, 31 October 2012

OCA — Wed, 31 Oct 2012 09:48:13 GMT

←Older revision		Revision as of 09:48, 31 October 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1dqp.png\|left\|200px]]		[[Image:1dqp.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1dqp", 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),
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	{{STRUCTURE_1dqp\| PDB=1dqp \| SCENE= }}		{{STRUCTURE_1dqp\| PDB=1dqp \| SCENE= }}

	===CRYSTAL STRUCTURE OF GIARDIA GUANINE PHOSPHORIBOSYLTRANSFERASE COMPLEXED WITH IMMUCILLING===		===CRYSTAL STRUCTURE OF GIARDIA GUANINE PHOSPHORIBOSYLTRANSFERASE COMPLEXED WITH IMMUCILLING===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_10841757}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 10841757 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_10841757}}		{{ABSTRACT_PUBMED_10841757}}

	==About this Structure==		==About this Structure==
-	~~1DQP~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Giardia_intestinalis Giardia intestinalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DQP OCA].	+	[[1dqp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Giardia_intestinalis Giardia intestinalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DQP OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~10841757~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:010841757</ref><references group="xtra"/>
	[[Category: Giardia intestinalis]]		[[Category: Giardia intestinalis]]
	[[Category: Hypoxanthine phosphoribosyltransferase]]		[[Category: Hypoxanthine phosphoribosyltransferase]]
Line 38:		Line 26:
	[[Category: Immucilling]]		[[Category: Immucilling]]
	[[Category: Protein-inhibitor complex]]		[[Category: Protein-inhibitor complex]]
-		+	[[Category: Transferase]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Mon Feb 16 20:03:08 2009''~~	+