1y6r - Revision history

OCA at 06:53, 23 August 2023

OCA — Wed, 23 Aug 2023 06:53:23 GMT

←Older revision		Revision as of 06:53, 23 August 2023
Line 3:		Line 3:
	<StructureSection load='1y6r' size='340' side='right'caption='[[1y6r]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1y6r' size='340' side='right'caption='[[1y6r]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1y6r]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_coli"_migula_1895 "bacillus~~ coli~~" migula 1895~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y6R OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1Y6R FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1y6r]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y6R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Y6R FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=MTM:(3S,4R)~~-~~2-(4-AMINO-5H-PYRROLO[3~~,~~2-D]PYRIMIDIN-7-YL)-5-~~[~~(METHYLSULFANYL)METHYL~~]~~PYRROLIDINE-3,4-DIOL'>MTM</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]] 2.2Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;'>~~[[~~1y6q\|1y6q~~]~~]</div></td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MTM:(3S,4R)-2-(4-AMINO-5H-PYRROLO[3,2-D]PYRIMIDIN-7-YL)-5-[(METHYLSULFANYL)METHYL]PYRROLIDINE-3,4-DIOL'>MTM</scene></td></tr>
-	~~<tr id='gene~~'>~~<td class="sblockLbl"><b>[[Gene\|Gene:]]~~</b>~~</td><td class="sblockDat">mtnN, mtn, pfs ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])~~</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=1y6r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1y6r OCA], [https://pdbe.org/1y6r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1y6r RCSB], [https://www.ebi.ac.uk/pdbsum/1y6r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1y6r 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=1y6r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1y6r OCA], [~~http~~://pdbe.org/1y6r PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1y6r RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1y6r PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1y6r ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/MTNN_ECOLI MTNN_ECOLI]] Catalyzes the irreversible cleavage of the glycosidic bond in both 5'-methylthioadenosine (MTA) and S-adenosylhomocysteine (SAH/AdoHcy) to adenine and the corresponding thioribose, 5'-methylthioribose and S-ribosylhomocysteine, respectively. Can also use 5'-isobutylthioadenosine, 5'-n-butylthioadenosine, S-adenosyl-D-homocysteine, decarboxylated adenosylhomocysteine, deaminated adenosylhomocysteine and S-2-aza-adenosylhomocysteine as substrates.[HAMAP-Rule:MF_01684]	+	[https://www.uniprot.org/uniprot/MTNN_ECOLI MTNN_ECOLI] Catalyzes the irreversible cleavage of the glycosidic bond in both 5'-methylthioadenosine (MTA) and S-adenosylhomocysteine (SAH/AdoHcy) to adenine and the corresponding thioribose, 5'-methylthioribose and S-ribosylhomocysteine, respectively. Can also use 5'-isobutylthioadenosine, 5'-n-butylthioadenosine, S-adenosyl-D-homocysteine, decarboxylated adenosylhomocysteine, deaminated adenosylhomocysteine and S-2-aza-adenosylhomocysteine as substrates.[HAMAP-Rule:MF_01684]
	== 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: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Cornell~~, K A~~]]	+	[[Category: Cornell KA]]
-	[[Category: Evans~~, G B~~]]	+	[[Category: Evans GB]]
-	[[Category: Furneaux~~, R H~~]]	+	[[Category: Furneaux RH]]
-	[[Category: Howell~~, P L~~]]	+	[[Category: Howell PL]]
-	[[Category: Lee~~, J E~~]]	+	[[Category: Lee JE]]
-	[[Category: Riscoe~~, M K~~]]	+	[[Category: Riscoe MK]]
-	[[Category: Schramm~~, V L~~]]	+	[[Category: Schramm VL]]
-	[[Category: Singh, V]]	+	[[Category: Singh V]]
-	[[Category: Tyler~~, P C]]~~	+	[[Category: Tyler PC]]
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Mixed alpha/beta~~]]	+

OCA at 08:40, 20 January 2021

OCA — Wed, 20 Jan 2021 08:40:30 GMT

←Older revision		Revision as of 08:40, 20 January 2021
Line 1:		Line 1:

	==Crystal structure of MTA/AdoHcy nucleosidase complexed with MT-ImmA.==		==Crystal structure of MTA/AdoHcy nucleosidase complexed with MT-ImmA.==
-	<StructureSection load='1y6r' size='340' side='right' caption='[[1y6r]], [[Resolution\|resolution]] 2.20Å' scene=''>	+	<StructureSection load='1y6r' size='340' side='right'caption='[[1y6r]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1y6r]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y6R OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1Y6R FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1y6r]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y6R OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1Y6R FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MTM:(3S,4R)-2-(4-AMINO-5H-PYRROLO[3,2-D]PYRIMIDIN-7-YL)-5-[(METHYLSULFANYL)METHYL]PYRROLIDINE-3,4-DIOL'>MTM</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MTM:(3S,4R)-2-(4-AMINO-5H-PYRROLO[3,2-D]PYRIMIDIN-7-YL)-5-[(METHYLSULFANYL)METHYL]PYRROLIDINE-3,4-DIOL'>MTM</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1y6q\|1y6q]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1y6q\|1y6q]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtnN, mtn, pfs ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtnN, mtn, pfs ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=1y6r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1y6r OCA], [http://pdbe.org/1y6r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1y6r RCSB], [http://www.ebi.ac.uk/pdbsum/1y6r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1y6r 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=1y6r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1y6r OCA], [http://pdbe.org/1y6r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1y6r RCSB], [http://www.ebi.ac.uk/pdbsum/1y6r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1y6r ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 35:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
		+	[[Category: Large Structures]]
	[[Category: Cornell, K A]]		[[Category: Cornell, K A]]
	[[Category: Evans, G B]]		[[Category: Evans, G B]]

OCA at 07:08, 25 April 2018

OCA — Wed, 25 Apr 2018 07:08:30 GMT

←Older revision		Revision as of 07:08, 25 April 2018
Line 1:		Line 1:
		+
	==Crystal structure of MTA/AdoHcy nucleosidase complexed with MT-ImmA.==		==Crystal structure of MTA/AdoHcy nucleosidase complexed with MT-ImmA.==
	<StructureSection load='1y6r' size='340' side='right' caption='[[1y6r]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1y6r' size='340' side='right' caption='[[1y6r]], [[Resolution\|resolution]] 2.20Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1y6q\|1y6q]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1y6q\|1y6q]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtnN, mtn, pfs ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtnN, mtn, pfs ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=1y6r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1y6r OCA], [http://pdbe.org/1y6r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1y6r RCSB], [http://www.ebi.ac.uk/pdbsum/1y6r 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=1y6r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1y6r OCA], [http://pdbe.org/1y6r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1y6r RCSB], [http://www.ebi.ac.uk/pdbsum/1y6r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1y6r ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 14:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/y6/1y6r_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/y6/1y6r_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=1y6r ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 10:21, 11 September 2015

OCA — Fri, 11 Sep 2015 10:21:38 GMT

←Older revision		Revision as of 10:21, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1y6r' size='340' side='right' caption='[[1y6r]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1y6r' size='340' side='right' caption='[[1y6r]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1y6r]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Escherichia_coli Escherichia~~ coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y6R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Y6R FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1y6r]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y6R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Y6R FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MTM:(3S,4R)-2-(4-AMINO-5H-PYRROLO[3,2-D]PYRIMIDIN-7-YL)-5-[(METHYLSULFANYL)METHYL]PYRROLIDINE-3,4-DIOL'>MTM</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MTM:(3S,4R)-2-(4-AMINO-5H-PYRROLO[3,2-D]PYRIMIDIN-7-YL)-5-[(METHYLSULFANYL)METHYL]PYRROLIDINE-3,4-DIOL'>MTM</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1y6q\|1y6q]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1y6q\|1y6q]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtnN, mtn, pfs ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 ~~Escherichia~~ coli])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtnN, mtn, pfs ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=1y6r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1y6r OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1y6r RCSB], [http://www.ebi.ac.uk/pdbsum/1y6r 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=1y6r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1y6r OCA], [http://pdbe.org/1y6r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1y6r RCSB], [http://www.ebi.ac.uk/pdbsum/1y6r PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 28:		Line 28:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 1y6r" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Escherichia~~ coli]]	+	[[Category: Bacillus coli migula 1895]]
	[[Category: Cornell, K A]]		[[Category: Cornell, K A]]
	[[Category: Evans, G B]]		[[Category: Evans, G B]]

OCA at 15:07, 25 December 2014

OCA — Thu, 25 Dec 2014 15:07:48 GMT

←Older revision		Revision as of 15:07, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1y6r]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y6R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Y6R FirstGlance]. <br>		<table><tr><td colspan='2'>[[1y6r]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y6R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Y6R FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MTM:(3S,4R)-2-(4-AMINO-5H-PYRROLO[3,2-D]PYRIMIDIN-7-YL)-5-[(METHYLSULFANYL)METHYL]PYRROLIDINE-3,4-DIOL'>MTM</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MTM:(3S,4R)-2-(4-AMINO-5H-PYRROLO[3,2-D]PYRIMIDIN-7-YL)-5-[(METHYLSULFANYL)METHYL]PYRROLIDINE-3,4-DIOL'>MTM</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1y6q\|1y6q]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1y6q\|1y6q]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtnN, mtn, pfs ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtnN, mtn, pfs ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</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=1y6r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1y6r OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1y6r RCSB], [http://www.ebi.ac.uk/pdbsum/1y6r 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=1y6r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1y6r OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1y6r RCSB], [http://www.ebi.ac.uk/pdbsum/1y6r PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MTNN_ECOLI MTNN_ECOLI]] Catalyzes the irreversible cleavage of the glycosidic bond in both 5'-methylthioadenosine (MTA) and S-adenosylhomocysteine (SAH/AdoHcy) to adenine and the corresponding thioribose, 5'-methylthioribose and S-ribosylhomocysteine, respectively. Can also use 5'-isobutylthioadenosine, 5'-n-butylthioadenosine, S-adenosyl-D-homocysteine, decarboxylated adenosylhomocysteine, deaminated adenosylhomocysteine and S-2-aza-adenosylhomocysteine as substrates.[HAMAP-Rule:MF_01684]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 31:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
-	[[Category: Cornell, K A.]]	+	[[Category: Cornell, K A]]
-	[[Category: Evans, G B.]]	+	[[Category: Evans, G B]]
-	[[Category: Furneaux, R H.]]	+	[[Category: Furneaux, R H]]
-	[[Category: Howell, P L.]]	+	[[Category: Howell, P L]]
-	[[Category: Lee, J E.]]	+	[[Category: Lee, J E]]
-	[[Category: Riscoe, M K.]]	+	[[Category: Riscoe, M K]]
-	[[Category: Schramm, V L.]]	+	[[Category: Schramm, V L]]
-	[[Category: Singh, V.]]	+	[[Category: Singh, V]]
-	[[Category: Tyler, P C.]]	+	[[Category: Tyler, P C]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Mixed alpha/beta]]		[[Category: Mixed alpha/beta]]

OCA at 22:06, 29 September 2014

OCA — Mon, 29 Sep 2014 22:06:41 GMT

←Older revision		Revision as of 22:06, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1y6r.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of MTA/AdoHcy nucleosidase complexed with MT-ImmA.==
		+	<StructureSection load='1y6r' size='340' side='right' caption='[[1y6r]], [[Resolution\|resolution]] 2.20Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1y6r]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y6R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Y6R FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MTM:(3S,4R)-2-(4-AMINO-5H-PYRROLO[3,2-D]PYRIMIDIN-7-YL)-5-[(METHYLSULFANYL)METHYL]PYRROLIDINE-3,4-DIOL'>MTM</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1y6q\|1y6q]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtnN, mtn, pfs ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</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=1y6r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1y6r OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1y6r RCSB], [http://www.ebi.ac.uk/pdbsum/1y6r 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/y6/1y6r_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 ==
		+	Immucillin and DADMe-Immucillin inhibitors are tight binding transition state mimics of purine nucleoside phosphorylases (PNP). 5'-Methylthioadenosine/S-adenosylhomocysteine nucleosidase (MTAN) is proposed to form a similar transition state structure as PNP. The companion paper describes modifications of the Immucillin and DADMe-Immucillin inhibitors to better match transition state features of MTAN and have led to 5'-thio aromatic substitutions that extend the inhibition constants to the femtomolar range (Singh, V., Evans, G. B., Lenz, D. H., Mason, J., Clinch, K., Mee, S., Painter, G. F., Tyler, P. C., Furneaux, R. H., Lee, J. E., Howell, P. L., and Schramm, V. L. (2005) J. Biol. Chem. 280, 18265-18273). 5'-Methylthio-Immucillin A (MT-ImmA) and 5'-methylthio-DADMe-Immucillin A (MT-DADMe-ImmA) exhibit slow-onset inhibition with K(i)(*) of 77 and 2 pm, respectively, and were selected for structural analysis as the parent compounds of each class of transition state analogue. The crystal structures of Escherichia coli MTAN complexed with MT-ImmA and MT-DADMe-ImmA were determined to 2.2 A resolution and compared with the existing MTAN inhibitor complexes. These MTAN-transition state complexes are among the tightest binding enzyme-ligand complexes ever described and analysis of their mode of binding provides extraordinary insight into the structural basis for their affinity. The MTAN-MT-ImmA complex reveals the presence of a new ion pair between the 4'-iminoribitol atom and the nucleophilic water (WAT3) that captures key features of the transition state. Similarly, in the MTAN-MT-DADMe-ImmA complex a favorable hydrogen bond or ion pair interaction between the cationic 1'-pyrrolidine atom and WAT3 is crucial for tight affinity. Distance analysis of the nucleophile and leaving group show that MT-ImmA is a mimic of an early transition state, while MT-DADMe-ImmA is a better mimic of the highly dissociated transition state of E. coli MTAN.

-	~~{{STRUCTURE_1y6r\| PDB=1y6r \| SCENE= }}~~	+	Structural rationale for the affinity of pico- and femtomolar transition state analogues of Escherichia coli 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase.,Lee JE, Singh V, Evans GB, Tyler PC, Furneaux RH, Cornell KA, Riscoe MK, Schramm VL, Howell PL J Biol Chem. 2005 May 6;280(18):18274-82. Epub 2005 Mar 3. PMID:15746096<ref>PMID:15746096</ref>

-	~~===Crystal structure of MTA~~/~~AdoHcy nucleosidase complexed with MT-ImmA.===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_15746096}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1y6r]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Escherichia_coli Escherichia coli]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1Y6R OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:015746096<~~/~~ref~~><~~ref group="xtra">PMID:016109423</ref><references group="xtra"~~/>	+
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Cornell, K A.]]		[[Category: Cornell, K A.]]

OCA: Protected "1y6r" [edit=sysop:move=sysop]

OCA — Sat, 05 Jan 2013 13:50:39 GMT

Protected "1y6r" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:50, 5 January 2013

OCA at 13:50, 5 January 2013

OCA — Sat, 05 Jan 2013 13:50:37 GMT

←Older revision		Revision as of 13:50, 5 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1y6r.png\|left\|200px]]		[[Image:1y6r.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1y6r", 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_1y6r\| PDB=1y6r \| SCENE= }}		{{STRUCTURE_1y6r\| PDB=1y6r \| SCENE= }}

	===Crystal structure of MTA/AdoHcy nucleosidase complexed with MT-ImmA.===		===Crystal structure of MTA/AdoHcy nucleosidase complexed with MT-ImmA.===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_15746096}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 15746096 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_15746096}}		{{ABSTRACT_PUBMED_15746096}}

	==About this Structure==		==About this Structure==
-	~~1Y6R~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y6R OCA].	+	[[1y6r]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y6R OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~15746096~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:015746096</ref><ref group="xtra">PMID:016109423</ref><references group="xtra"/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Cornell, K A.]]		[[Category: Cornell, K A.]]
Line 34:		Line 22:
	[[Category: Singh, V.]]		[[Category: Singh, V.]]
	[[Category: Tyler, P C.]]		[[Category: Tyler, P C.]]
		+	[[Category: Hydrolase]]
	[[Category: Mixed alpha/beta]]		[[Category: Mixed alpha/beta]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 19:47:27 2009''

OCA at 17:47, 17 February 2009

OCA — Tue, 17 Feb 2009 17:47:29 GMT

←Older revision		Revision as of 17:47, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	1Y6R is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y6R OCA].	+	1Y6R is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y6R OCA].

	==Reference==		==Reference==
-	Structural rationale for the affinity of pico- and femtomolar transition state analogues of Escherichia coli 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase., Lee JE, Singh V, Evans GB, Tyler PC, Furneaux RH, Cornell KA, Riscoe MK, Schramm VL, Howell PL, J Biol Chem. 2005 May 6;280(18):18274-82. Epub 2005 Mar 3. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/15746096 15746096]~~	+	<ref group="xtra">PMID:15746096</ref><references group="xtra"/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
-	[[Category: Single protein]]
	[[Category: Cornell, K A.]]		[[Category: Cornell, K A.]]
	[[Category: Evans, G B.]]		[[Category: Evans, G B.]]
Line 37:		Line 36:
	[[Category: Mixed alpha/beta]]		[[Category: Mixed alpha/beta]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue ~~Jul 29 03:41~~:47 ~~2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 19:47:27 2009''

OCA at 00:41, 29 July 2008

OCA — Tue, 29 Jul 2008 00:41:56 GMT

←Older revision		Revision as of 00:41, 29 July 2008
Line 1:		Line 1:
-	[[Image:1y6r.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:1y6r.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_1y6r\| PDB=1y6r \| SCENE= }}		{{STRUCTURE_1y6r\| PDB=1y6r \| SCENE= }}

-	~~'''~~Crystal structure of MTA/AdoHcy nucleosidase complexed with MT-ImmA.~~'''~~	+	===Crystal structure of MTA/AdoHcy nucleosidase complexed with MT-ImmA.===


-	~~==Overview==~~	+	<!--
-	~~Immucillin and DADMe~~-~~Immucillin inhibitors are tight binding transition state mimics of purine nucleoside phosphorylases (PNP). 5'~~-~~Methylthioadenosine/S-adenosylhomocysteine nucleosidase (MTAN) is proposed to form a similar transition state structure as PNP.~~ The ~~companion paper describes modifications of~~ the ~~Immucillin and DADMe-Immucillin inhibitors~~ to ~~better match transition state features of MTAN and have led to 5'-thio aromatic substitutions that extend~~ the ~~inhibition constants to the femtomolar range~~ (Singh, V., Evans, G. B., Lenz, D. H., Mason, J., Clinch, K., Mee, S., Painter, G. F., Tyler, P. C., Furneaux, R. H., Lee, J. E., Howell, P. L., and Schramm, V. L. (2005) J. Biol. Chem. 280, 18265-18273). 5'-Methylthio-Immucillin A (MT-ImmA) and 5'-methylthio-DADMe-Immucillin A (MT-DADMe-ImmA) exhibit slow-onset inhibition with K(i)(*) of 77 and 2 pm, respectively, and were selected for structural analysis as ~~the parent compounds of each class of transition state analogue~~. ~~The crystal structures of Escherichia coli MTAN complexed with MT-ImmA and MT-DADMe-ImmA were determined to 2~~.2 A resolution and compared with the existing MTAN inhibitor complexes. These MTAN-transition state complexes are among the tightest binding enzyme-ligand complexes ever described and analysis of their mode of binding provides extraordinary insight into the structural basis for their affinity. The MTAN-MT-ImmA complex reveals the presence of a new ion pair between the 4'-iminoribitol atom and the nucleophilic water (WAT3) ~~that captures key features of the transition state. Similarly~~, in the ~~MTAN-MT-DADMe-ImmA complex a favorable hydrogen bond or ion pair interaction between the cationic 1'-pyrrolidine atom and WAT3 is crucial for tight affinity~~. ~~Distance analysis of the nucleophile and leaving group show that MT~~-~~ImmA is a mimic of an early transition state, while MT~~-~~DADMe-ImmA is a better mimic of the highly dissociated transition state of E. coli MTAN.~~	+	The line below this paragraph, {{ABSTRACT_PUBMED_15746096}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 15746096 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_15746096}}

	==About this Structure==		==About this Structure==
Line 32:		Line 36:
	[[Category: Tyler, P C.]]		[[Category: Tyler, P C.]]
	[[Category: Mixed alpha/beta]]		[[Category: Mixed alpha/beta]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sat May 3 15~~:56:20 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 03:41:47 2008''