2ntk - Revision history

OCA at 10:20, 30 August 2023

OCA — Wed, 30 Aug 2023 10:20:26 GMT

←Older revision		Revision as of 10:20, 30 August 2023
Line 3:		Line 3:
	<StructureSection load='2ntk' size='340' side='right'caption='[[2ntk]], [[Resolution\|resolution]] 2.03Å' scene=''>		<StructureSection load='2ntk' size='340' side='right'caption='[[2ntk]], [[Resolution\|resolution]] 2.03Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ntk]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"methanobacterium_thermoautotrophicus"_(sic)_zeikus_and_wolfe_1972 "methanobacterium thermoautotrophicus" (sic) zeikus and wolfe 1972~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NTK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NTK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ntk]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NTK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NTK FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=IMP:INOSINIC+ACID'>IMP</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]] 2.03Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max~~-~~height: 3em;'>[[2ntl\|2ntl]]~~, [[~~2ntm~~\|~~2ntm~~]]~~</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IMP:INOSINIC+ACID'>IMP</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>PurO ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~145262~~ "~~Methanobacterium thermoautotrophicus~~" ~~(sic) Zeikus and Wolfe 1972])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/IMP_cyclohydrolase~~ IMP ~~cyclohydrolase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.10 3.5.4.10]~~ </~~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=2ntk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ntk OCA], [https://pdbe.org/2ntk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ntk RCSB], [https://www.ebi.ac.uk/pdbsum/2ntk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ntk 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=2ntk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ntk OCA], [https://pdbe.org/2ntk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ntk RCSB], [https://www.ebi.ac.uk/pdbsum/2ntk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ntk ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/PURO_METTH PURO_METTH]] Catalyzes the cyclization of 5-formylamidoimidazole-4-carboxamide ribonucleotide to IMP (By similarity).	+	[https://www.uniprot.org/uniprot/PURO_METTH PURO_METTH] Catalyzes the cyclization of 5-formylamidoimidazole-4-carboxamide ribonucleotide to IMP (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: IMP cyclohydrolase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Ealick, S E~~]]	+	[[Category: Methanothermobacter thermautotrophicus]]
-	[[Category: ~~Kang, Y N~~]]	+	[[Category: Ealick SE]]
-	[[Category: ~~Tran, A~~]]	+	[[Category: Kang YN]]
-	[[Category: ~~White, R H~~]]	+	[[Category: Tran A]]
-	[[Category: ~~Alpha-beta-beta-alpha ntn hydrolase fold]]~~	+	[[Category: White RH]]
-	~~[[Category: Hydrolase~~]]	+

OCA at 15:50, 8 June 2021

OCA — Tue, 08 Jun 2021 15:50:45 GMT

←Older revision		Revision as of 15:50, 8 June 2021
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	==Crystal structure of PurO/IMP from Methanothermobacter thermoautotrophicus==		==Crystal structure of PurO/IMP from Methanothermobacter thermoautotrophicus==
-	<StructureSection load='2ntk' size='340' side='right' caption='[[2ntk]], [[Resolution\|resolution]] 2.03Å' scene=''>	+	<StructureSection load='2ntk' size='340' side='right'caption='[[2ntk]], [[Resolution\|resolution]] 2.03Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ntk]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"methanobacterium_thermoautotrophicus"_(sic)_zeikus_and_wolfe_1972 "methanobacterium thermoautotrophicus" (sic) zeikus and wolfe 1972]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NTK OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2NTK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ntk]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/"methanobacterium_thermoautotrophicus"_(sic)_zeikus_and_wolfe_1972 "methanobacterium thermoautotrophicus" (sic) zeikus and wolfe 1972]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NTK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NTK FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IMP:INOSINIC+ACID'>IMP</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IMP:INOSINIC+ACID'>IMP</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2ntl\|2ntl]], [[2ntm\|2ntm]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2ntl\|2ntl]], [[2ntm\|2ntm]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PurO ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 "Methanobacterium thermoautotrophicus" (sic) Zeikus and Wolfe 1972])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PurO ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 "Methanobacterium thermoautotrophicus" (sic) Zeikus and Wolfe 1972])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/IMP_cyclohydrolase IMP cyclohydrolase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.10 3.5.4.10] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/IMP_cyclohydrolase IMP cyclohydrolase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.10 3.5.4.10] </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=2ntk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ntk OCA], [~~http~~://pdbe.org/2ntk PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2ntk RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2ntk PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2ntk 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=2ntk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ntk OCA], [https://pdbe.org/2ntk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ntk RCSB], [https://www.ebi.ac.uk/pdbsum/2ntk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ntk ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PURO_METTH PURO_METTH]] Catalyzes the cyclization of 5-formylamidoimidazole-4-carboxamide ribonucleotide to IMP (By similarity).	+	[[https://www.uniprot.org/uniprot/PURO_METTH PURO_METTH]] Catalyzes the cyclization of 5-formylamidoimidazole-4-carboxamide ribonucleotide to IMP (By similarity).
	== 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==
-	*[[Cyclohydrolase\|Cyclohydrolase]]	+	*[[Bifunctional purine biosynthesis protein PURH\|Bifunctional purine biosynthesis protein PURH]]
		+	*[[Cyclohydrolase 3D structures\|Cyclohydrolase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 39:		Line 40:
	</StructureSection>		</StructureSection>
	[[Category: IMP cyclohydrolase]]		[[Category: IMP cyclohydrolase]]
		+	[[Category: Large Structures]]
	[[Category: Ealick, S E]]		[[Category: Ealick, S E]]
	[[Category: Kang, Y N]]		[[Category: Kang, Y N]]

OCA at 17:28, 15 August 2018

OCA — Wed, 15 Aug 2018 17:28:13 GMT

←Older revision		Revision as of 17:28, 15 August 2018
Line 1:		Line 1:
		+
	==Crystal structure of PurO/IMP from Methanothermobacter thermoautotrophicus==		==Crystal structure of PurO/IMP from Methanothermobacter thermoautotrophicus==
	<StructureSection load='2ntk' size='340' side='right' caption='[[2ntk]], [[Resolution\|resolution]] 2.03Å' scene=''>		<StructureSection load='2ntk' size='340' side='right' caption='[[2ntk]], [[Resolution\|resolution]] 2.03Å' scene=''>
Line 7:		Line 8:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PurO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 "Methanobacterium thermoautotrophicus" (sic) Zeikus and Wolfe 1972])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PurO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 "Methanobacterium thermoautotrophicus" (sic) Zeikus and Wolfe 1972])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/IMP_cyclohydrolase IMP cyclohydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.10 3.5.4.10] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/IMP_cyclohydrolase IMP cyclohydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.10 3.5.4.10] </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=2ntk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ntk OCA], [http://pdbe.org/2ntk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ntk RCSB], [http://www.ebi.ac.uk/pdbsum/2ntk 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=2ntk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ntk OCA], [http://pdbe.org/2ntk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ntk RCSB], [http://www.ebi.ac.uk/pdbsum/2ntk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ntk 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/nt/2ntk_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/nt/2ntk_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=2ntk ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 16:20, 11 September 2015

OCA — Fri, 11 Sep 2015 16:20:03 GMT

←Older revision		Revision as of 16:20, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2ntk' size='340' side='right' caption='[[2ntk]], [[Resolution\|resolution]] 2.03Å' scene=''>		<StructureSection load='2ntk' size='340' side='right' caption='[[2ntk]], [[Resolution\|resolution]] 2.03Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ntk]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NTK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NTK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ntk]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"methanobacterium_thermoautotrophicus"_(sic)_zeikus_and_wolfe_1972 "methanobacterium thermoautotrophicus" (sic) zeikus and wolfe 1972]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NTK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NTK FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IMP:INOSINIC+ACID'>IMP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IMP:INOSINIC+ACID'>IMP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2ntl\|2ntl]], [[2ntm\|2ntm]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2ntl\|2ntl]], [[2ntm\|2ntm]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PurO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 ~~Methanothermobacter thermautotrophicus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PurO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 "Methanobacterium thermoautotrophicus" (sic) Zeikus and Wolfe 1972])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/IMP_cyclohydrolase IMP cyclohydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.10 3.5.4.10] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/IMP_cyclohydrolase IMP cyclohydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.10 3.5.4.10] </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=2ntk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ntk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ntk RCSB], [http://www.ebi.ac.uk/pdbsum/2ntk 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=2ntk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ntk OCA], [http://pdbe.org/2ntk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ntk RCSB], [http://www.ebi.ac.uk/pdbsum/2ntk 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 2ntk" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 37:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: IMP cyclohydrolase]]		[[Category: IMP cyclohydrolase]]
-	[[Category: Methanothermobacter thermautotrophicus]]
	[[Category: Ealick, S E]]		[[Category: Ealick, S E]]
	[[Category: Kang, Y N]]		[[Category: Kang, Y N]]

OCA at 18:55, 25 December 2014

OCA — Thu, 25 Dec 2014 18:55:43 GMT

←Older revision		Revision as of 18:55, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2ntk]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NTK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NTK FirstGlance]. <br>		<table><tr><td colspan='2'>[[2ntk]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NTK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NTK FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IMP:INOSINIC+ACID'>IMP</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IMP:INOSINIC+ACID'>IMP</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2ntl\|2ntl]], [[2ntm\|2ntm]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2ntl\|2ntl]], [[2ntm\|2ntm]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PurO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 Methanothermobacter thermautotrophicus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PurO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 Methanothermobacter thermautotrophicus])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/IMP_cyclohydrolase IMP cyclohydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.10 3.5.4.10] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/IMP_cyclohydrolase IMP cyclohydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.10 3.5.4.10] </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=2ntk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ntk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ntk RCSB], [http://www.ebi.ac.uk/pdbsum/2ntk 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=2ntk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ntk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ntk RCSB], [http://www.ebi.ac.uk/pdbsum/2ntk PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PURO_METTH PURO_METTH]] Catalyzes the cyclization of 5-formylamidoimidazole-4-carboxamide ribonucleotide to IMP (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 38:
	[[Category: IMP cyclohydrolase]]		[[Category: IMP cyclohydrolase]]
	[[Category: Methanothermobacter thermautotrophicus]]		[[Category: Methanothermobacter thermautotrophicus]]
-	[[Category: Ealick, S E.]]	+	[[Category: Ealick, S E]]
-	[[Category: Kang, Y N.]]	+	[[Category: Kang, Y N]]
-	[[Category: Tran, A.]]	+	[[Category: Tran, A]]
-	[[Category: White, R H.]]	+	[[Category: White, R H]]
	[[Category: Alpha-beta-beta-alpha ntn hydrolase fold]]		[[Category: Alpha-beta-beta-alpha ntn hydrolase fold]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 20:16, 30 September 2014

OCA — Tue, 30 Sep 2014 20:16:12 GMT

←Older revision		Revision as of 20:16, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2ntk.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of PurO/IMP from Methanothermobacter thermoautotrophicus==
		+	<StructureSection load='2ntk' size='340' side='right' caption='[[2ntk]], [[Resolution\|resolution]] 2.03Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2ntk]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NTK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NTK FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IMP:INOSINIC+ACID'>IMP</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2ntl\|2ntl]], [[2ntm\|2ntm]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PurO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=145262 Methanothermobacter thermautotrophicus])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/IMP_cyclohydrolase IMP cyclohydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.10 3.5.4.10] </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=2ntk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ntk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ntk RCSB], [http://www.ebi.ac.uk/pdbsum/2ntk 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/nt/2ntk_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 ==
		+	Inosine 5'-monophosphate (IMP) cyclohydrolase catalyzes the cyclization of 5-formaminoimidazole-4-carboxamide ribonucleotide (FAICAR) to IMP in the final step of de novo purine biosynthesis. Two major types of this enzyme have been discovered to date: PurH in Bacteria and Eukarya and PurO in Archaea. The structure of the MTH1020 gene product from Methanothermobacter thermoautotrophicus was previously solved without functional annotation but shows high amino acid sequence similarity to other PurOs. We determined the crystal structure of the MTH1020 gene product in complex with either IMP or 5-aminoimidazole-4-carboxamide ribonucleotide (AICAR) at 2.0 and 2.6 A resolution, respectively. On the basis of the sequence analysis, ligand-bound structures, and biochemical data, MTH1020 is confirmed as an archaeal IMP cyclohydrolase, thus designated as MthPurO. MthPurO has a four-layered alphabeta betaalpha core structure, showing an N-terminal nucleophile (NTN) hydrolase fold. The active site is located at the deep pocket between two central beta-sheets and contains residues strictly conserved within PurOs. Comparisons of the two types of IMP cyclohydrolase, PurO and PurH, revealed that there are no similarities in sequence, structure, or the active site architecture, suggesting that they are evolutionarily not related to each other. The MjR31K mutant of PurO from Methanocaldococcus jannaschii showed 76% decreased activity and the MjE102Q mutation completely abolished enzymatic activity, suggesting that these highly conserved residues play critical roles in catalysis. Interestingly, green fluorescent protein (GFP), which has no structural homology to either PurO or PurH but catalyzes a similar intramolecular cyclohydrolase reaction required for chromophore maturation, utilizes Arg96 and Glu222 in a mechanism analogous to that of PurO.

-	~~{{STRUCTURE_2ntk\| PDB=2ntk \| SCENE= }}~~	+	A novel function for the N-terminal nucleophile hydrolase fold demonstrated by the structure of an archaeal inosine monophosphate cyclohydrolase.,Kang YN, Tran A, White RH, Ealick SE Biochemistry. 2007 May 1;46(17):5050-62. Epub 2007 Apr 4. PMID:17407260<ref>PMID:17407260</ref>

-	~~===Crystal structure~~ of ~~PurO~~/~~IMP from Methanothermobacter thermoautotrophicus===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_17407260}}~~	+	==See Also==
-		+	*[[Cyclohydrolase\|Cyclohydrolase]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~2ntk~~]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NTK OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:017407260<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: IMP cyclohydrolase]]		[[Category: IMP cyclohydrolase]]
	[[Category: Methanothermobacter thermautotrophicus]]		[[Category: Methanothermobacter thermautotrophicus]]

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

OCA — Mon, 07 Jan 2013 15:19:20 GMT

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

←Older revision

Revision as of 15:19, 7 January 2013

OCA at 15:19, 7 January 2013

OCA — Mon, 07 Jan 2013 15:19:18 GMT

←Older revision		Revision as of 15:19, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2ntk.png\|left\|200px]]		[[Image:2ntk.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2ntk", 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_2ntk\| PDB=2ntk \| SCENE= }}		{{STRUCTURE_2ntk\| PDB=2ntk \| SCENE= }}

	===Crystal structure of PurO/IMP from Methanothermobacter thermoautotrophicus===		===Crystal structure of PurO/IMP from Methanothermobacter thermoautotrophicus===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17407260}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17407260 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17407260}}		{{ABSTRACT_PUBMED_17407260}}

	==About this Structure==		==About this Structure==
-	~~2NTK~~ is a 4 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NTK OCA].	+	[[2ntk]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NTK OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17407260~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017407260</ref><references group="xtra"/>
	[[Category: IMP cyclohydrolase]]		[[Category: IMP cyclohydrolase]]
	[[Category: Methanothermobacter thermautotrophicus]]		[[Category: Methanothermobacter thermautotrophicus]]
Line 31:		Line 19:
	[[Category: White, R H.]]		[[Category: White, R H.]]
	[[Category: Alpha-beta-beta-alpha ntn hydrolase fold]]		[[Category: Alpha-beta-beta-alpha ntn hydrolase fold]]
-		+	[[Category: Hydrolase]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Wed Feb 18 03:37:20 2009''~~	+

OCA at 01:37, 18 February 2009

OCA — Wed, 18 Feb 2009 01:37:22 GMT

←Older revision		Revision as of 01:37, 18 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2NTK is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NTK OCA].	+	2NTK is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NTK OCA].

	==Reference==		==Reference==
-	A novel function for the N-terminal nucleophile hydrolase fold demonstrated by the structure of an archaeal inosine monophosphate cyclohydrolase., Kang YN, Tran A, White RH, Ealick SE, Biochemistry. 2007 May 1;46(17):5050-62. Epub 2007 Apr 4. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/17407260 17407260]~~	+	<ref group="xtra">PMID:17407260</ref><references group="xtra"/>
	[[Category: IMP cyclohydrolase]]		[[Category: IMP cyclohydrolase]]
	[[Category: Methanothermobacter thermautotrophicus]]		[[Category: Methanothermobacter thermautotrophicus]]
-	[[Category: Single protein]]
	[[Category: Ealick, S E.]]		[[Category: Ealick, S E.]]
	[[Category: Kang, Y N.]]		[[Category: Kang, Y N.]]
Line 33:		Line 32:
	[[Category: Alpha-beta-beta-alpha ntn hydrolase fold]]		[[Category: Alpha-beta-beta-alpha ntn hydrolase fold]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Tue Jul 29 09~~:51:~~58 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 03:37:20 2009''

OCA at 06:52, 29 July 2008

OCA — Tue, 29 Jul 2008 06:52:02 GMT

←Older revision		Revision as of 06:52, 29 July 2008
Line 1:		Line 1:
-	[[Image:2ntk.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:2ntk.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_2ntk\| PDB=2ntk \| SCENE= }}		{{STRUCTURE_2ntk\| PDB=2ntk \| SCENE= }}

-	~~'''~~Crystal structure of PurO/IMP from Methanothermobacter thermoautotrophicus~~'''~~	+	===Crystal structure of PurO/IMP from Methanothermobacter thermoautotrophicus===


-	~~==Overview==~~	+	<!--
-	~~Inosine 5'~~-~~monophosphate (IMP) cyclohydrolase catalyzes the cyclization of 5~~-~~formaminoimidazole-4-carboxamide ribonucleotide (FAICAR) to IMP in the final step of de novo purine biosynthesis. Two major types of~~ this ~~enzyme have been discovered to date: PurH in Bacteria and Eukarya and PurO in Archaea. The structure of~~ the ~~MTH1020 gene product from Methanothermobacter thermoautotrophicus was previously solved without functional annotation but shows high amino acid sequence similarity~~ to ~~other PurOs. We determined~~ the ~~crystal structure of the MTH1020 gene product in complex with either IMP or 5-aminoimidazole-4-carboxamide ribonucleotide~~ (~~AICAR)~~ at 2.~~0 and 2~~.~~6 A resolution~~, ~~respectively. On~~ the ~~basis of the sequence analysis, ligand-bound structures, and biochemical data, MTH1020 is confirmed as an archaeal IMP cyclohydrolase, thus designated as MthPurO~~. ~~MthPurO has a four~~-~~layered alphabeta betaalpha core structure, showing an N~~-terminal nucleophile (NTN) hydrolase fold. The active site is located at the deep pocket between two central beta-sheets and contains residues strictly conserved within PurOs. Comparisons of the two types of IMP cyclohydrolase, PurO and PurH, revealed that there are no similarities in sequence, structure, or the active site architecture, suggesting that they are evolutionarily not related to each other. The MjR31K mutant of PurO from Methanocaldococcus jannaschii showed 76% decreased activity and the MjE102Q mutation completely abolished enzymatic activity, suggesting that these highly conserved residues play critical roles in catalysis. Interestingly, green fluorescent protein (GFP), which has no structural homology to either PurO or PurH but catalyzes a similar intramolecular cyclohydrolase reaction required for chromophore maturation, utilizes Arg96 and Glu222 in a mechanism analogous to that of PurO.	+	The line below this paragraph, {{ABSTRACT_PUBMED_17407260}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 17407260 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_17407260}}

	==About this Structure==		==About this Structure==
Line 28:		Line 32:
	[[Category: White, R H.]]		[[Category: White, R H.]]
	[[Category: Alpha-beta-beta-alpha ntn hydrolase fold]]		[[Category: Alpha-beta-beta-alpha ntn hydrolase fold]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May 4~~ 09:53:44 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 09:51:58 2008''