2nm3 - Revision history

OCA at 10:16, 30 August 2023

OCA — Wed, 30 Aug 2023 10:16:53 GMT

←Older revision		Revision as of 10:16, 30 August 2023
Line 3:		Line 3:
	<StructureSection load='2nm3' size='340' side='right'caption='[[2nm3]], [[Resolution\|resolution]] 1.68Å' scene=''>		<StructureSection load='2nm3' size='340' side='right'caption='[[2nm3]], [[Resolution\|resolution]] 1.68Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2nm3]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"micrococcus_aureus"_(rosenbach_1884)_zopf_1885 "micrococcus~~ aureus~~" (rosenbach 1884) zopf 1885~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NM3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NM3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2nm3]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NM3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NM3 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>~~, ~~<scene name='pdbligand=MPU:D-MONAPTERIN'>MPU</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]] 1.68Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; max-height: 3em;'>[[2nm2\|2nm2]], [[1dhn\|1dhn]], [[2dhn\|2dhn]], [[1nbu\|1nbu]], [[1rr5\|1rr5]], [[1rri\|1rri]], [[1rrw\|1rrw]], [[1rry\|1rry]], [[1rs2\|1rs2]], [[1rs4\|1rs4]], [[1rsd\|1rsd]], [[1rsi\|1rsi]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MPU:D-MONAPTERIN'>MPU</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>folB ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~1280~~ "~~Micrococcus aureus~~" ~~(Rosenbach 1884) Zopf 1885])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Dihydroneopterin_aldolase Dihydroneopterin aldolase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.25 4.1.2.25]~~ </~~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=2nm3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nm3 OCA], [https://pdbe.org/2nm3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2nm3 RCSB], [https://www.ebi.ac.uk/pdbsum/2nm3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2nm3 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=2nm3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nm3 OCA], [https://pdbe.org/2nm3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2nm3 RCSB], [https://www.ebi.ac.uk/pdbsum/2nm3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2nm3 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/FOLB_STAAU FOLB_STAAU]] Catalyzes the conversion of 7,8-dihydroneopterin to 6-hydroxymethyl-7,8-dihydropterin.	+	[https://www.uniprot.org/uniprot/FOLB_STAAU FOLB_STAAU] Catalyzes the conversion of 7,8-dihydroneopterin to 6-hydroxymethyl-7,8-dihydropterin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 38:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Dihydroneopterin aldolase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Blaszczyk, J~~]]	+	[[Category: Staphylococcus aureus]]
-	[[Category: ~~Ji, X~~]]	+	[[Category: Blaszczyk J]]
-	[[Category: ~~Yan, H~~]]	+	[[Category: Ji X]]
-	[[Category: ~~8-dihydromonapterin]]~~	+	[[Category: Yan H]]
-	~~[[Category: Dhna]]~~	+
-	~~[[Category: Drug design]]~~	+
-	~~[[Category: Lyase]]~~	+
-	~~[[Category: Monapterin]]~~	+
-	~~[[Category: Neopterin]]~~	+
-	~~[[Category: Substrate complex~~]]	+

OCA at 15:45, 8 June 2021

OCA — Tue, 08 Jun 2021 15:45:37 GMT

←Older revision		Revision as of 15:45, 8 June 2021
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	==Crystal structure of dihydroneopterin aldolase from S. aureus in complex with (1S,2S)-monapterin at 1.68 angstrom resolution==		==Crystal structure of dihydroneopterin aldolase from S. aureus in complex with (1S,2S)-monapterin at 1.68 angstrom resolution==
-	<StructureSection load='2nm3' size='340' side='right' caption='[[2nm3]], [[Resolution\|resolution]] 1.68Å' scene=''>	+	<StructureSection load='2nm3' size='340' side='right'caption='[[2nm3]], [[Resolution\|resolution]] 1.68Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2nm3]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"micrococcus_aureus"_(rosenbach_1884)_zopf_1885 "micrococcus aureus" (rosenbach 1884) zopf 1885]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NM3 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2NM3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2nm3]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"micrococcus_aureus"_(rosenbach_1884)_zopf_1885 "micrococcus aureus" (rosenbach 1884) zopf 1885]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NM3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NM3 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MPU:D-MONAPTERIN'>MPU</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MPU:D-MONAPTERIN'>MPU</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2nm2\|2nm2]], [[1dhn\|1dhn]], [[2dhn\|2dhn]], [[1nbu\|1nbu]], [[1rr5\|1rr5]], [[1rri\|1rri]], [[1rrw\|1rrw]], [[1rry\|1rry]], [[1rs2\|1rs2]], [[1rs4\|1rs4]], [[1rsd\|1rsd]], [[1rsi\|1rsi]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2nm2\|2nm2]], [[1dhn\|1dhn]], [[2dhn\|2dhn]], [[1nbu\|1nbu]], [[1rr5\|1rr5]], [[1rri\|1rri]], [[1rrw\|1rrw]], [[1rry\|1rry]], [[1rs2\|1rs2]], [[1rs4\|1rs4]], [[1rsd\|1rsd]], [[1rsi\|1rsi]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">folB ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 "Micrococcus aureus" (Rosenbach 1884) Zopf 1885])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">folB ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 "Micrococcus aureus" (Rosenbach 1884) Zopf 1885])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Dihydroneopterin_aldolase Dihydroneopterin aldolase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.25 4.1.2.25] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Dihydroneopterin_aldolase Dihydroneopterin aldolase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.25 4.1.2.25] </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=2nm3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nm3 OCA], [~~http~~://pdbe.org/2nm3 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2nm3 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2nm3 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2nm3 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=2nm3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nm3 OCA], [https://pdbe.org/2nm3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2nm3 RCSB], [https://www.ebi.ac.uk/pdbsum/2nm3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2nm3 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/FOLB_STAAU FOLB_STAAU]] Catalyzes the conversion of 7,8-dihydroneopterin to 6-hydroxymethyl-7,8-dihydropterin.	+	[[https://www.uniprot.org/uniprot/FOLB_STAAU FOLB_STAAU]] Catalyzes the conversion of 7,8-dihydroneopterin to 6-hydroxymethyl-7,8-dihydropterin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 33:

	==See Also==		==See Also==
-	*[[Aldolase\|Aldolase]]	+	*[[Aldolase 3D structures\|Aldolase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 39:		Line 39:
	</StructureSection>		</StructureSection>
	[[Category: Dihydroneopterin aldolase]]		[[Category: Dihydroneopterin aldolase]]
		+	[[Category: Large Structures]]
	[[Category: Blaszczyk, J]]		[[Category: Blaszczyk, J]]
	[[Category: Ji, X]]		[[Category: Ji, X]]

OCA at 17:15, 15 August 2018

OCA — Wed, 15 Aug 2018 17:15:20 GMT

←Older revision		Revision as of 17:15, 15 August 2018
Line 1:		Line 1:
		+
	==Crystal structure of dihydroneopterin aldolase from S. aureus in complex with (1S,2S)-monapterin at 1.68 angstrom resolution==		==Crystal structure of dihydroneopterin aldolase from S. aureus in complex with (1S,2S)-monapterin at 1.68 angstrom resolution==
	<StructureSection load='2nm3' size='340' side='right' caption='[[2nm3]], [[Resolution\|resolution]] 1.68Å' scene=''>		<StructureSection load='2nm3' size='340' side='right' caption='[[2nm3]], [[Resolution\|resolution]] 1.68Å' scene=''>
Line 7:		Line 8:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">folB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 "Micrococcus aureus" (Rosenbach 1884) Zopf 1885])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">folB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 "Micrococcus aureus" (Rosenbach 1884) Zopf 1885])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dihydroneopterin_aldolase Dihydroneopterin aldolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.25 4.1.2.25] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dihydroneopterin_aldolase Dihydroneopterin aldolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.25 4.1.2.25] </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=2nm3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nm3 OCA], [http://pdbe.org/2nm3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2nm3 RCSB], [http://www.ebi.ac.uk/pdbsum/2nm3 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=2nm3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nm3 OCA], [http://pdbe.org/2nm3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2nm3 RCSB], [http://www.ebi.ac.uk/pdbsum/2nm3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2nm3 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 15:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/nm/2nm3_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/nm/2nm3_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 11:11, 7 February 2016

OCA — Sun, 07 Feb 2016 11:11:48 GMT

←Older revision		Revision as of 11:11, 7 February 2016
Line 19:		Line 19:
	<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=2nm3 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 00:56, 10 September 2015

OCA — Thu, 10 Sep 2015 00:56:29 GMT

←Older revision		Revision as of 00:56, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2nm3' size='340' side='right' caption='[[2nm3]], [[Resolution\|resolution]] 1.68Å' scene=''>		<StructureSection load='2nm3' size='340' side='right' caption='[[2nm3]], [[Resolution\|resolution]] 1.68Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2nm3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Staphylococcus_aureus Staphylococcus~~ aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NM3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NM3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2nm3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"micrococcus_aureus"_(rosenbach_1884)_zopf_1885 "micrococcus aureus" (rosenbach 1884) zopf 1885]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NM3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NM3 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MPU:D-MONAPTERIN'>MPU</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MPU:D-MONAPTERIN'>MPU</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2nm2\|2nm2]], [[1dhn\|1dhn]], [[2dhn\|2dhn]], [[1nbu\|1nbu]], [[1rr5\|1rr5]], [[1rri\|1rri]], [[1rrw\|1rrw]], [[1rry\|1rry]], [[1rs2\|1rs2]], [[1rs4\|1rs4]], [[1rsd\|1rsd]], [[1rsi\|1rsi]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2nm2\|2nm2]], [[1dhn\|1dhn]], [[2dhn\|2dhn]], [[1nbu\|1nbu]], [[1rr5\|1rr5]], [[1rri\|1rri]], [[1rrw\|1rrw]], [[1rry\|1rry]], [[1rs2\|1rs2]], [[1rs4\|1rs4]], [[1rsd\|1rsd]], [[1rsi\|1rsi]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">folB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 ~~Staphylococcus~~ aureus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">folB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 "Micrococcus aureus" (Rosenbach 1884) Zopf 1885])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dihydroneopterin_aldolase Dihydroneopterin aldolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.25 4.1.2.25] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dihydroneopterin_aldolase Dihydroneopterin aldolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.25 4.1.2.25] </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=2nm3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nm3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2nm3 RCSB], [http://www.ebi.ac.uk/pdbsum/2nm3 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=2nm3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nm3 OCA], [http://pdbe.org/2nm3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2nm3 RCSB], [http://www.ebi.ac.uk/pdbsum/2nm3 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 29:		Line 29:
	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 2nm3" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 37:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Dihydroneopterin aldolase]]		[[Category: Dihydroneopterin aldolase]]
-	[[Category: Staphylococcus aureus]]
	[[Category: Blaszczyk, J]]		[[Category: Blaszczyk, J]]
	[[Category: Ji, X]]		[[Category: Ji, X]]

OCA at 14:38, 24 December 2014

OCA — Wed, 24 Dec 2014 14:38:43 GMT

←Older revision		Revision as of 14:38, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2nm3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NM3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NM3 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2nm3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NM3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NM3 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MPU:D-MONAPTERIN'>MPU</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MPU:D-MONAPTERIN'>MPU</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2nm2\|2nm2]], [[1dhn\|1dhn]], [[2dhn\|2dhn]], [[1nbu\|1nbu]], [[1rr5\|1rr5]], [[1rri\|1rri]], [[1rrw\|1rrw]], [[1rry\|1rry]], [[1rs2\|1rs2]], [[1rs4\|1rs4]], [[1rsd\|1rsd]], [[1rsi\|1rsi]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2nm2\|2nm2]], [[1dhn\|1dhn]], [[2dhn\|2dhn]], [[1nbu\|1nbu]], [[1rr5\|1rr5]], [[1rri\|1rri]], [[1rrw\|1rrw]], [[1rry\|1rry]], [[1rs2\|1rs2]], [[1rs4\|1rs4]], [[1rsd\|1rsd]], [[1rsi\|1rsi]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">folB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 Staphylococcus aureus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">folB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 Staphylococcus aureus])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dihydroneopterin_aldolase Dihydroneopterin aldolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.25 4.1.2.25] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dihydroneopterin_aldolase Dihydroneopterin aldolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.25 4.1.2.25] </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=2nm3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nm3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2nm3 RCSB], [http://www.ebi.ac.uk/pdbsum/2nm3 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=2nm3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nm3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2nm3 RCSB], [http://www.ebi.ac.uk/pdbsum/2nm3 PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/FOLB_STAAU FOLB_STAAU]] Catalyzes the conversion of 7,8-dihydroneopterin to 6-hydroxymethyl-7,8-dihydropterin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 38:
	[[Category: Dihydroneopterin aldolase]]		[[Category: Dihydroneopterin aldolase]]
	[[Category: Staphylococcus aureus]]		[[Category: Staphylococcus aureus]]
-	[[Category: Blaszczyk, J.]]	+	[[Category: Blaszczyk, J]]
-	[[Category: Ji, X.]]	+	[[Category: Ji, X]]
-	[[Category: Yan, H.]]	+	[[Category: Yan, H]]
	[[Category: 8-dihydromonapterin]]		[[Category: 8-dihydromonapterin]]
	[[Category: Dhna]]		[[Category: Dhna]]
-	[[Category: Dihydroneopterin aldolase]]
	[[Category: Drug design]]		[[Category: Drug design]]
	[[Category: Lyase]]		[[Category: Lyase]]

OCA at 04:40, 29 September 2014

OCA — Mon, 29 Sep 2014 04:40:48 GMT

←Older revision		Revision as of 04:40, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2nm3.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of dihydroneopterin aldolase from S. aureus in complex with (1S,2S)-monapterin at 1.68 angstrom resolution==
		+	<StructureSection load='2nm3' size='340' side='right' caption='[[2nm3]], [[Resolution\|resolution]] 1.68Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2nm3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NM3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NM3 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MPU:D-MONAPTERIN'>MPU</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2nm2\|2nm2]], [[1dhn\|1dhn]], [[2dhn\|2dhn]], [[1nbu\|1nbu]], [[1rr5\|1rr5]], [[1rri\|1rri]], [[1rrw\|1rrw]], [[1rry\|1rry]], [[1rs2\|1rs2]], [[1rs4\|1rs4]], [[1rsd\|1rsd]], [[1rsi\|1rsi]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">folB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 Staphylococcus aureus])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dihydroneopterin_aldolase Dihydroneopterin aldolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.2.25 4.1.2.25] </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=2nm3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nm3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2nm3 RCSB], [http://www.ebi.ac.uk/pdbsum/2nm3 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/nm/2nm3_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 ==
		+	Dihydroneopterin aldolase (DHNA) catalyzes the conversion of 7,8-dihydroneopterin (DHNP) to 6-hydroxymethyl-7,8-dihydropterin (HP) and the epimerization of DHNP to 7,8-dihydromonopterin (DHMP). Although crystal structures of the enzyme from several microorganisms have been reported, no structural information is available about the critical interactions between DHNA and the trihydroxypropyl moiety of the substrate, which undergoes bond cleavage and formation. Here, we present the structures of Staphylococcus aureus DHNA (SaDHNA) in complex with neopterin (NP, an analog of DHNP) and with monapterin (MP, an analog of DHMP), filling the gap in the structural analysis of the enzyme. In combination with previously reported SaDHNA structures in its ligand-free form (PDB entry 1DHN) and in complex with HP (PDB entry 2DHN), four snapshots for the catalytic center assembly along the reaction pathway can be derived, advancing our knowledge about the molecular mechanism of SaDHNA-catalyzed reactions. An additional step appears to be necessary for the epimerization of DHMP to DHNP. Three active site residues (E22, K100, and Y54) function coordinately during catalysis: together, they organize the catalytic center assembly, and individually, each plays a central role at different stages of the catalytic cycle.

-	~~{{STRUCTURE_2nm3\| PDB=2nm3 \| SCENE= }}~~	+	Structural basis for the aldolase and epimerase activities of Staphylococcus aureus dihydroneopterin aldolase.,Blaszczyk J, Li Y, Gan J, Yan H, Ji X J Mol Biol. 2007 Apr 20;368(1):161-9. Epub 2007 Feb 9. PMID:17331536<ref>PMID:17331536</ref>

-	~~===Crystal structure~~ of ~~dihydroneopterin aldolase from~~ S. ~~aureus in complex with (1S,2S)-monapterin at 1~~.~~68 angstrom resolution===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17331536}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2nm3]] is a 1 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NM3 OCA].~~	+

	==See Also==		==See Also==
	*[[Aldolase\|Aldolase]]		*[[Aldolase\|Aldolase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:017331536<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Dihydroneopterin aldolase]]		[[Category: Dihydroneopterin aldolase]]
	[[Category: Staphylococcus aureus]]		[[Category: Staphylococcus aureus]]

OCA at 06:27, 20 October 2012

OCA — Sat, 20 Oct 2012 06:27:43 GMT

←Older revision		Revision as of 06:27, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2nm3]] is a 1 chain structure ~~of [[Aldolase]]~~ with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NM3 OCA].	+	[[2nm3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NM3 OCA].

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

OCA: Protected "2nm3" [edit=sysop:move=sysop]

OCA — Wed, 25 Jul 2012 13:15:20 GMT

Protected "2nm3" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:15, 25 July 2012

OCA at 13:15, 25 July 2012

OCA — Wed, 25 Jul 2012 13:15:17 GMT

←Older revision		Revision as of 13:15, 25 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2nm3.png\|left\|200px]]		[[Image:2nm3.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2nm3", 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_2nm3\| PDB=2nm3 \| SCENE= }}		{{STRUCTURE_2nm3\| PDB=2nm3 \| SCENE= }}

	===Crystal structure of dihydroneopterin aldolase from S. aureus in complex with (1S,2S)-monapterin at 1.68 angstrom resolution===		===Crystal structure of dihydroneopterin aldolase from S. aureus in complex with (1S,2S)-monapterin at 1.68 angstrom resolution===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17331536}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17331536 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17331536}}		{{ABSTRACT_PUBMED_17331536}}

	==About this Structure==		==About this Structure==
-	~~2NM3~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NM3 OCA].	+	[[2nm3]] is a 1 chain structure of [[Aldolase]] with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NM3 OCA].
		+
		+	==See Also==
		+	*[[Aldolase\|Aldolase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17331536~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017331536</ref><references group="xtra"/>
	[[Category: Dihydroneopterin aldolase]]		[[Category: Dihydroneopterin aldolase]]
	[[Category: Staphylococcus aureus]]		[[Category: Staphylococcus aureus]]
Line 29:		Line 20:
	[[Category: Ji, X.]]		[[Category: Ji, X.]]
	[[Category: Yan, H.]]		[[Category: Yan, H.]]
-	[[Category: 7,8-dihydromonapterin]]	+	[[Category: 8-dihydromonapterin]]
	[[Category: Dhna]]		[[Category: Dhna]]
	[[Category: Dihydroneopterin aldolase]]		[[Category: Dihydroneopterin aldolase]]
Line 37:		Line 28:
	[[Category: Neopterin]]		[[Category: Neopterin]]
	[[Category: Substrate complex]]		[[Category: Substrate complex]]
-	[[Category: X-ray crystallography]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 13:24:52 2009''