1p74 - Revision history

OCA at 08:05, 14 February 2024

OCA — Wed, 14 Feb 2024 08:05:57 GMT

←Older revision		Revision as of 08:05, 14 February 2024
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	<StructureSection load='1p74' size='340' side='right'caption='[[1p74]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='1p74' size='340' side='right'caption='[[1p74]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1p74]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacterium_influenzae"_lehmann_and_neumann_1896 "bacterium~~ influenzae~~" lehmann and neumann 1896~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P74 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1P74 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1p74]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P74 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1P74 FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[1p77\|1p77]]</div></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]] 2.4Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">AROE OR HI0655 ([http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=727 "Bacterium influenzae" Lehmann and Neumann 1896])</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=1p74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1p74 OCA], [https://pdbe.org/1p74 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1p74 RCSB], [https://www.ebi.ac.uk/pdbsum/1p74 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1p74 ProSAT]</span></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Shikimate_dehydrogenase Shikimate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.25 1.1.1.25] </span></td></tr>	+
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=1p74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1p74 OCA], [~~http~~://pdbe.org/1p74 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1p74 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1p74 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1p74 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/AROE_HAEIN AROE_HAEIN]
	== 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=1p74 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=1p74 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Shikimate dehydrogenase catalyzes the NADPH-dependent reversible reduction of 3-dehydroshikimate to shikimate. We report the first X-ray structure of shikimate dehydrogenase from Haemophilus influenzae to 2.4-A resolution and its complex with NADPH to 1.95-A resolution. The molecule contains two domains, a catalytic domain with a novel open twisted alpha/beta motif and an NADPH binding domain with a typical Rossmann fold. The enzyme contains a unique glycine-rich P-loop with a conserved sequence motif, GAGGXX, that results in NADPH adopting a nonstandard binding mode with the nicotinamide and ribose moieties disordered in the binary complex. A deep pocket with a narrow entrance between the two domains, containing strictly conserved residues primarily contributed by the catalytic domain, is identified as a potential 3-dehydroshikimate binding pocket. The flexibility of the nicotinamide mononucleotide portion of NADPH may be necessary for the substrate 3-dehydroshikimate to enter the pocket and for the release of the product shikimate.
-
-	The crystal structure of shikimate dehydrogenase (AroE) reveals a unique NADPH binding mode.,Ye S, Von Delft F, Brooun A, Knuth MW, Swanson RV, McRee DE J Bacteriol. 2003 Jul;185(14):4144-51. PMID:12837789<ref>PMID:12837789</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1p74" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
-	*[[Shikimate dehydrogenase\|Shikimate dehydrogenase]]	+	*[[Shikimate dehydrogenase 3D structures\|Shikimate dehydrogenase 3D structures]]
-	~~== References ==~~	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacterium~~ influenzae ~~lehmann and neumann 1896~~]]	+	[[Category: Haemophilus influenzae]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Shikimate dehydrogenase]]~~	+	[[Category: Brooun A]]
-	[[Category: Brooun, A]]	+	[[Category: Knuth MW]]
-	~~[[Category: Delft, F von~~]]	+	[[Category: McRee DE]]
-	[[Category: Knuth~~, M W~~]]	+	[[Category: Swanson RV]]
-	[[Category: McRee~~, D E~~]]	+	[[Category: Ye S]]
-	[[Category: Swanson~~, R V~~]]	+	[[Category: Von Delft F]]
-	[[Category: Ye, S]]	+
-	[[Category: ~~Haemophilus influenzae]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 07:24, 9 December 2020

OCA — Wed, 09 Dec 2020 07:24:30 GMT

←Older revision		Revision as of 07:24, 9 December 2020
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	==CRYSTAL STRUCTURE OF SHIKIMATE DEHYDROGENASE (AROE) FROM HAEMOPHILUS INFLUENZAE==		==CRYSTAL STRUCTURE OF SHIKIMATE DEHYDROGENASE (AROE) FROM HAEMOPHILUS INFLUENZAE==
-	<StructureSection load='1p74' size='340' side='right' caption='[[1p74]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='1p74' size='340' side='right'caption='[[1p74]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1p74]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_influenzae"_lehmann_and_neumann_1896 "bacterium influenzae" lehmann and neumann 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P74 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1P74 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1p74]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_influenzae"_lehmann_and_neumann_1896 "bacterium influenzae" lehmann and neumann 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P74 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1P74 FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1p77\|1p77]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1p77\|1p77]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AROE OR HI0655 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 "Bacterium influenzae" Lehmann and Neumann 1896])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AROE OR HI0655 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 "Bacterium influenzae" Lehmann and Neumann 1896])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Shikimate_dehydrogenase Shikimate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.25 1.1.1.25] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Shikimate_dehydrogenase Shikimate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.25 1.1.1.25] </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=1p74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1p74 OCA], [http://pdbe.org/1p74 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1p74 RCSB], [http://www.ebi.ac.uk/pdbsum/1p74 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1p74 ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=1p74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1p74 OCA], [http://pdbe.org/1p74 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1p74 RCSB], [http://www.ebi.ac.uk/pdbsum/1p74 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1p74 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	</div>		</div>
	<div class="pdbe-citations 1p74" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1p74" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Shikimate dehydrogenase\|Shikimate dehydrogenase]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Bacterium influenzae lehmann and neumann 1896]]		[[Category: Bacterium influenzae lehmann and neumann 1896]]
		+	[[Category: Large Structures]]
	[[Category: Shikimate dehydrogenase]]		[[Category: Shikimate dehydrogenase]]
	[[Category: Brooun, A]]		[[Category: Brooun, A]]

OCA at 06:26, 31 January 2018

OCA — Wed, 31 Jan 2018 06:26:24 GMT

←Older revision		Revision as of 06:26, 31 January 2018
Line 1:		Line 1:
		+
	==CRYSTAL STRUCTURE OF SHIKIMATE DEHYDROGENASE (AROE) FROM HAEMOPHILUS INFLUENZAE==		==CRYSTAL STRUCTURE OF SHIKIMATE DEHYDROGENASE (AROE) FROM HAEMOPHILUS INFLUENZAE==
	<StructureSection load='1p74' size='340' side='right' caption='[[1p74]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='1p74' size='340' side='right' caption='[[1p74]], [[Resolution\|resolution]] 2.40Å' scene=''>
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	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AROE OR HI0655 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 "Bacterium influenzae" Lehmann and Neumann 1896])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AROE OR HI0655 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 "Bacterium influenzae" Lehmann and Neumann 1896])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Shikimate_dehydrogenase Shikimate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.25 1.1.1.25] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Shikimate_dehydrogenase Shikimate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.25 1.1.1.25] </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=1p74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1p74 OCA], [http://pdbe.org/1p74 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1p74 RCSB], [http://www.ebi.ac.uk/pdbsum/1p74 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=1p74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1p74 OCA], [http://pdbe.org/1p74 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1p74 RCSB], [http://www.ebi.ac.uk/pdbsum/1p74 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1p74 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/p7/1p74_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/p7/1p74_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1p74 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</div>		</div>
	<div class="pdbe-citations 1p74" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1p74" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Shikimate dehydrogenase\|Shikimate dehydrogenase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:30, 11 September 2015

OCA — Fri, 11 Sep 2015 07:30:40 GMT

←Older revision		Revision as of 07:30, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1p74' size='340' side='right' caption='[[1p74]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='1p74' size='340' side='right' caption='[[1p74]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1p74]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Haemophilus_influenzae Haemophilus~~ influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P74 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1P74 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1p74]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_influenzae"_lehmann_and_neumann_1896 "bacterium influenzae" lehmann and neumann 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P74 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1P74 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1p77\|1p77]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1p77\|1p77]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AROE OR HI0655 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 ~~Haemophilus~~ influenzae])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AROE OR HI0655 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 "Bacterium influenzae" Lehmann and Neumann 1896])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Shikimate_dehydrogenase Shikimate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.25 1.1.1.25] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Shikimate_dehydrogenase Shikimate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.25 1.1.1.25] </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=1p74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1p74 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1p74 RCSB], [http://www.ebi.ac.uk/pdbsum/1p74 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=1p74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1p74 OCA], [http://pdbe.org/1p74 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1p74 RCSB], [http://www.ebi.ac.uk/pdbsum/1p74 PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	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 1p74" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Haemophilus~~ influenzae]]	+	[[Category: Bacterium influenzae lehmann and neumann 1896]]
	[[Category: Shikimate dehydrogenase]]		[[Category: Shikimate dehydrogenase]]
	[[Category: Brooun, A]]		[[Category: Brooun, A]]
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	[[Category: Swanson, R V]]		[[Category: Swanson, R V]]
	[[Category: Ye, S]]		[[Category: Ye, S]]
		+	[[Category: Haemophilus influenzae]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 06:44, 6 January 2015

OCA — Tue, 06 Jan 2015 06:44:03 GMT

←Older revision		Revision as of 06:44, 6 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1p74]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P74 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1P74 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1p74]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P74 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1P74 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1p77\|1p77]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1p77\|1p77]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AROE OR HI0655 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 Haemophilus influenzae])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AROE OR HI0655 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 Haemophilus influenzae])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Shikimate_dehydrogenase Shikimate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.25 1.1.1.25] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Shikimate_dehydrogenase Shikimate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.25 1.1.1.25] </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=1p74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1p74 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1p74 RCSB], [http://www.ebi.ac.uk/pdbsum/1p74 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=1p74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1p74 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1p74 RCSB], [http://www.ebi.ac.uk/pdbsum/1p74 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: Haemophilus influenzae]]		[[Category: Haemophilus influenzae]]
	[[Category: Shikimate dehydrogenase]]		[[Category: Shikimate dehydrogenase]]
-	[[Category: Brooun, A.]]	+	[[Category: Brooun, A]]
-	[[Category: Delft, F von.]]	+	[[Category: Delft, F von]]
-	[[Category: Knuth, M W.]]	+	[[Category: Knuth, M W]]
-	[[Category: McRee, D E.]]	+	[[Category: McRee, D E]]
-	[[Category: Swanson, R V.]]	+	[[Category: Swanson, R V]]
-	[[Category: Ye, S~~.]]~~	+	[[Category: Ye, S]]
-	~~[[Category: Haemophilus influenzae~~]]	+
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
-	[[Category: Shikimate dehydrogenase]]

OCA at 22:13, 28 September 2014

OCA — Sun, 28 Sep 2014 22:13:42 GMT

←Older revision		Revision as of 22:13, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1p74.~~png~~\|~~left~~\|200px]]	+	==CRYSTAL STRUCTURE OF SHIKIMATE DEHYDROGENASE (AROE) FROM HAEMOPHILUS INFLUENZAE==
		+	<StructureSection load='1p74' size='340' side='right' caption='[[1p74]], [[Resolution\|resolution]] 2.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1p74]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P74 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1P74 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1p77\|1p77]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AROE OR HI0655 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=727 Haemophilus influenzae])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Shikimate_dehydrogenase Shikimate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.25 1.1.1.25] </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=1p74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1p74 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1p74 RCSB], [http://www.ebi.ac.uk/pdbsum/1p74 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/p7/1p74_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 ==
		+	Shikimate dehydrogenase catalyzes the NADPH-dependent reversible reduction of 3-dehydroshikimate to shikimate. We report the first X-ray structure of shikimate dehydrogenase from Haemophilus influenzae to 2.4-A resolution and its complex with NADPH to 1.95-A resolution. The molecule contains two domains, a catalytic domain with a novel open twisted alpha/beta motif and an NADPH binding domain with a typical Rossmann fold. The enzyme contains a unique glycine-rich P-loop with a conserved sequence motif, GAGGXX, that results in NADPH adopting a nonstandard binding mode with the nicotinamide and ribose moieties disordered in the binary complex. A deep pocket with a narrow entrance between the two domains, containing strictly conserved residues primarily contributed by the catalytic domain, is identified as a potential 3-dehydroshikimate binding pocket. The flexibility of the nicotinamide mononucleotide portion of NADPH may be necessary for the substrate 3-dehydroshikimate to enter the pocket and for the release of the product shikimate.

-	~~{{STRUCTURE_1p74\| PDB=1p74 \| SCENE= }}~~	+	The crystal structure of shikimate dehydrogenase (AroE) reveals a unique NADPH binding mode.,Ye S, Von Delft F, Brooun A, Knuth MW, Swanson RV, McRee DE J Bacteriol. 2003 Jul;185(14):4144-51. PMID:12837789<ref>PMID:12837789</ref>

-	~~===CRYSTAL STRUCTURE OF SHIKIMATE DEHYDROGENASE (AROE) FROM HAEMOPHILUS INFLUENZAE===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_12837789}}~~	+	==See Also==
-		+	*[[Shikimate dehydrogenase\|Shikimate dehydrogenase]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~1p74~~]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P74 OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:012837789<~~/~~ref~~><~~ref group="xtra">PMID:017649975</ref><references group="xtra"~~/>	+
	[[Category: Haemophilus influenzae]]		[[Category: Haemophilus influenzae]]
	[[Category: Shikimate dehydrogenase]]		[[Category: Shikimate dehydrogenase]]

OCA: Protected "1p74" [edit=sysop:move=sysop]

OCA — Wed, 19 Dec 2012 11:52:47 GMT

Protected "1p74" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:52, 19 December 2012

OCA at 11:52, 19 December 2012

OCA — Wed, 19 Dec 2012 11:52:43 GMT

←Older revision		Revision as of 11:52, 19 December 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1p74.png\|left\|200px]]		[[Image:1p74.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1p74", 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_1p74\| PDB=1p74 \| SCENE= }}		{{STRUCTURE_1p74\| PDB=1p74 \| SCENE= }}

	===CRYSTAL STRUCTURE OF SHIKIMATE DEHYDROGENASE (AROE) FROM HAEMOPHILUS INFLUENZAE===		===CRYSTAL STRUCTURE OF SHIKIMATE DEHYDROGENASE (AROE) FROM HAEMOPHILUS INFLUENZAE===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_12837789}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 12837789 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_12837789}}		{{ABSTRACT_PUBMED_12837789}}

	==About this Structure==		==About this Structure==
-	~~1P74~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P74 OCA].	+	[[1p74]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P74 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~12837789~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:012837789</ref><ref group="xtra">PMID:017649975</ref><references group="xtra"/>
	[[Category: Haemophilus influenzae]]		[[Category: Haemophilus influenzae]]
	[[Category: Shikimate dehydrogenase]]		[[Category: Shikimate dehydrogenase]]
Line 33:		Line 21:
	[[Category: Ye, S.]]		[[Category: Ye, S.]]
	[[Category: Haemophilus influenzae]]		[[Category: Haemophilus influenzae]]
		+	[[Category: Oxidoreductase]]
	[[Category: Shikimate dehydrogenase]]		[[Category: Shikimate dehydrogenase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 17:09:48 2009''

OCA at 15:09, 17 February 2009

OCA — Tue, 17 Feb 2009 15:09:49 GMT

←Older revision		Revision as of 15:09, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	1P74 is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P74 OCA].	+	1P74 is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P74 OCA].

	==Reference==		==Reference==
-	~~The crystal structure of shikimate dehydrogenase (AroE) reveals a unique NADPH binding mode., Ye S, Von Delft F, Brooun A, Knuth MW, Swanson RV, McRee DE, J Bacteriol. 2003 Jul;185(14):4144-51.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/12837789 12837789]~~	+	<ref group="xtra">PMID:12837789</ref><references group="xtra"/>
	[[Category: Haemophilus influenzae]]		[[Category: Haemophilus influenzae]]
	[[Category: Shikimate dehydrogenase]]		[[Category: Shikimate dehydrogenase]]
-	[[Category: Single protein]]
	[[Category: Brooun, A.]]		[[Category: Brooun, A.]]
	[[Category: Delft, F von.]]		[[Category: Delft, F von.]]
Line 36:		Line 35:
	[[Category: Shikimate dehydrogenase]]		[[Category: Shikimate dehydrogenase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue ~~Jul 29 00~~:01:~~17 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 17:09:48 2009''

OCA at 21:01, 28 July 2008

OCA — Mon, 28 Jul 2008 21:01:19 GMT

←Older revision		Revision as of 21:01, 28 July 2008
Line 1:		Line 1:
-	[[Image:1p74.~~jpg~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:1p74.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_1p74\| PDB=1p74 \| SCENE= }}		{{STRUCTURE_1p74\| PDB=1p74 \| SCENE= }}

-	~~'''~~CRYSTAL STRUCTURE OF SHIKIMATE DEHYDROGENASE (AROE) FROM HAEMOPHILUS INFLUENZAE~~'''~~	+	===CRYSTAL STRUCTURE OF SHIKIMATE DEHYDROGENASE (AROE) FROM HAEMOPHILUS INFLUENZAE===


-	~~==Overview==~~	+	<!--
-	~~Shikimate dehydrogenase catalyzes the NADPH~~-~~dependent reversible reduction of 3~~-~~dehydroshikimate to shikimate. We report the first X-ray structure of shikimate dehydrogenase from Haemophilus influenzae to 2.4-A resolution and its complex with NADPH to 1.95-A resolution.~~ The ~~molecule contains two domains~~, ~~a catalytic domain with a novel open twisted alpha/beta motif and an NADPH binding domain with a typical Rossmann fold. The enzyme contains a unique glycine-rich P-loop with a conserved sequence motif~~, ~~GAGGXX, that results in NADPH adopting a nonstandard binding mode with~~ the ~~nicotinamide and ribose moieties disordered in~~ the ~~binary complex~~. ~~A deep pocket with a narrow entrance between the two domains~~, ~~containing strictly conserved residues primarily contributed by~~ the ~~catalytic domain, is identified as a potential 3-dehydroshikimate binding pocket~~. ~~The flexibility of the nicotinamide mononucleotide portion of NADPH may be necessary for the substrate 3~~-~~dehydroshikimate to enter the pocket and for the release of the product shikimate.~~	+	The line below this paragraph, {{ABSTRACT_PUBMED_12837789}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 12837789 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_12837789}}

	==About this Structure==		==About this Structure==
Line 31:		Line 35:
	[[Category: Haemophilus influenzae]]		[[Category: Haemophilus influenzae]]
	[[Category: Shikimate dehydrogenase]]		[[Category: Shikimate dehydrogenase]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sat May 3 04~~:46:09 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 00:01:17 2008''