3uav - Revision history

OCA at 13:53, 14 March 2024

OCA — Thu, 14 Mar 2024 13:53:14 GMT

←Older revision		Revision as of 13:53, 14 March 2024
Line 3:		Line 3:
	<StructureSection load='3uav' size='340' side='right'caption='[[3uav]], [[Resolution\|resolution]] 1.40Å' scene=''>		<StructureSection load='3uav' size='340' side='right'caption='[[3uav]], [[Resolution\|resolution]] 1.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3uav]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_14579 Atcc 14579~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UAV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UAV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3uav]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_cereus Bacillus cereus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UAV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UAV FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>~~, ~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.4Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[3uaw\|3uaw]], [[3uax\|3uax]], [[3uay\|3uay]], [[3uaz\|3uaz]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>deoD ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~1396 ATCC 14579])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Purine-nucleoside_phosphorylase Purine-nucleoside phosphorylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.1 2.4.2.1]~~ </~~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=3uav FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uav OCA], [https://pdbe.org/3uav PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3uav RCSB], [https://www.ebi.ac.uk/pdbsum/3uav PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3uav 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=3uav FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uav OCA], [https://pdbe.org/3uav PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3uav RCSB], [https://www.ebi.ac.uk/pdbsum/3uav PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3uav ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/DEOD_BACCE DEOD_BACCE]
-	Purine nucleoside phosphorylases catalyze the phosphorolytic cleavage of the glycosidic bond of purine (2'-deoxy)nucleosides, generating the corresponding free base and (2'-deoxy)ribose 1-phosphate. Two classes of PNPs have been identified: homotrimers specific for 6-oxopurines and homohexamers that accept both 6-oxopurines and 6-aminopurines. Bacillus cereus adenosine phosphorylase (AdoP) is a hexameric PNP; however, it is highly specific for 6-aminopurines. To investigate the structural basis for the unique substrate specificity of AdoP, the active-site mutant D204N was prepared and kinetically characterized and the structures of the wild-type protein and the D204N mutant complexed with adenosine and sulfate or with inosine and sulfate were determined at high resolution (1.2-1.4 A). AdoP interacts directly with the preferred substrate through a hydrogen-bond donation from the catalytically important residue Asp204 to N7 of the purine base. Comparison with Escherichia coli PNP revealed a more optimal orientation of Asp204 towards N7 of adenosine and a more closed active site. When inosine is bound, two water molecules are interposed between Asp204 and the N7 and O6 atoms of the nucleoside, thus allowing the enzyme to find alternative but less efficient ways to stabilize the transition state. The mutation of Asp204 to asparagine led to a significant decrease in catalytic efficiency for adenosine without affecting the efficiency of inosine cleavage.	+
-		+
-	Structural basis of the substrate specificity of Bacillus cereus adenosine phosphorylase.,Dessanti P, Zhang Y, Allegrini S, Tozzi MG, Sgarrella F, Ealick SE Acta Crystallogr D Biol Crystallogr. 2012 Mar;68(Pt 3):239-48. Epub 2012 Feb 14. PMID:22349225<ref>PMID:22349225</~~ref>~~	+
-		+
-	~~From MEDLINE®~~/~~PubMed®, a database of the U~~.S. ~~National Library of Medicine.<br>~~	+
-	</~~div>~~	+
-	~~<div class="pdbe-citations 3uav" style="background-color:#fffaf0;"><~~/~~div>~~	+

	==See Also==		==See Also==
	*[[Purine nucleoside phosphorylase 3D structures\|Purine nucleoside phosphorylase 3D structures]]		*[[Purine nucleoside phosphorylase 3D structures\|Purine nucleoside phosphorylase 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Atcc 14579~~]]	+	[[Category: Bacillus cereus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Purine-nucleoside phosphorylase]]~~	+	[[Category: Allegrini S]]
-	[[Category: Allegrini, S]]	+	[[Category: Dessanti P]]
-	[[Category: Dessanti, P]]	+	[[Category: Ealick SE]]
-	[[Category: Ealick~~, S E~~]]	+	[[Category: Sgarrella F]]
-	[[Category: Sgarrella, F]]	+	[[Category: Tozzi MG]]
-	[[Category: Tozzi~~, M G~~]]	+	[[Category: Zhang Y]]
-	[[Category: Zhang, Y]]	+
-	~~[[Category: Transferase~~]]	+

OCA at 06:05, 13 July 2022

OCA — Wed, 13 Jul 2022 06:05:43 GMT

←Older revision		Revision as of 06:05, 13 July 2022
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	==Crystal structure of adenosine phosphorylase from Bacillus cereus==		==Crystal structure of adenosine phosphorylase from Bacillus cereus==
-	<StructureSection load='3uav' size='340' side='right' caption='[[3uav]], [[Resolution\|resolution]] 1.40Å' scene=''>	+	<StructureSection load='3uav' size='340' side='right'caption='[[3uav]], [[Resolution\|resolution]] 1.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3uav]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_14579 Atcc 14579]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UAV OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3UAV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3uav]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_14579 Atcc 14579]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UAV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UAV FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3uaw\|3uaw]], [[3uax\|3uax]], [[3uay\|3uay]], [[3uaz\|3uaz]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3uaw\|3uaw]], [[3uax\|3uax]], [[3uay\|3uay]], [[3uaz\|3uaz]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">deoD ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1396 ATCC 14579])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">deoD ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1396 ATCC 14579])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Purine-nucleoside_phosphorylase Purine-nucleoside phosphorylase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.1 2.4.2.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Purine-nucleoside_phosphorylase Purine-nucleoside phosphorylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.1 2.4.2.1] </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=3uav FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uav OCA], [~~http~~://pdbe.org/3uav PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3uav RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3uav PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3uav 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=3uav FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uav OCA], [https://pdbe.org/3uav PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3uav RCSB], [https://www.ebi.ac.uk/pdbsum/3uav PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3uav ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	==See Also==		==See Also==
-	*[[Purine nucleoside phosphorylase\|Purine nucleoside phosphorylase]]	+	*[[Purine nucleoside phosphorylase 3D structures\|Purine nucleoside phosphorylase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 27:		Line 27:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 14579]]		[[Category: Atcc 14579]]
		+	[[Category: Large Structures]]
	[[Category: Purine-nucleoside phosphorylase]]		[[Category: Purine-nucleoside phosphorylase]]
	[[Category: Allegrini, S]]		[[Category: Allegrini, S]]

OCA at 19:47, 11 August 2016

OCA — Thu, 11 Aug 2016 19:47:45 GMT

←Older revision		Revision as of 19:47, 11 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of adenosine phosphorylase from Bacillus cereus==		==Crystal structure of adenosine phosphorylase from Bacillus cereus==
	<StructureSection load='3uav' size='340' side='right' caption='[[3uav]], [[Resolution\|resolution]] 1.40Å' scene=''>		<StructureSection load='3uav' size='340' side='right' caption='[[3uav]], [[Resolution\|resolution]] 1.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3uav]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Bacillus_cereus Bacillus cereus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UAV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UAV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3uav]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_14579 Atcc 14579]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UAV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UAV FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3uaw\|3uaw]], [[3uax\|3uax]], [[3uay\|3uay]], [[3uaz\|3uaz]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3uaw\|3uaw]], [[3uax\|3uax]], [[3uay\|3uay]], [[3uaz\|3uaz]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">deoD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1396 ~~Bacillus cereus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">deoD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1396 ATCC 14579])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Purine-nucleoside_phosphorylase Purine-nucleoside phosphorylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.1 2.4.2.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Purine-nucleoside_phosphorylase Purine-nucleoside phosphorylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.1 2.4.2.1] </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=3uav FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uav OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3uav RCSB], [http://www.ebi.ac.uk/pdbsum/3uav 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=3uav FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uav OCA], [http://pdbe.org/3uav PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3uav RCSB], [http://www.ebi.ac.uk/pdbsum/3uav PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3uav ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 17:		Line 18:
	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 3uav" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 24:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus cereus~~]]	+	[[Category: Atcc 14579]]
	[[Category: Purine-nucleoside phosphorylase]]		[[Category: Purine-nucleoside phosphorylase]]
	[[Category: Allegrini, S]]		[[Category: Allegrini, S]]

OCA at 09:27, 4 January 2015

OCA — Sun, 04 Jan 2015 09:27:41 GMT

←Older revision		Revision as of 09:27, 4 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3uav]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_cereus Bacillus cereus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UAV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UAV FirstGlance]. <br>		<table><tr><td colspan='2'>[[3uav]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_cereus Bacillus cereus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UAV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UAV FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3uaw\|3uaw]], [[3uax\|3uax]], [[3uay\|3uay]], [[3uaz\|3uaz]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3uaw\|3uaw]], [[3uax\|3uax]], [[3uay\|3uay]], [[3uaz\|3uaz]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">deoD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1396 Bacillus cereus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">deoD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1396 Bacillus cereus])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Purine-nucleoside_phosphorylase Purine-nucleoside phosphorylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.1 2.4.2.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Purine-nucleoside_phosphorylase Purine-nucleoside phosphorylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.1 2.4.2.1] </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=3uav FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uav OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3uav RCSB], [http://www.ebi.ac.uk/pdbsum/3uav 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=3uav FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uav OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3uav RCSB], [http://www.ebi.ac.uk/pdbsum/3uav PDBsum]</span></td></tr>
-	<table>	+	</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	Structural basis of the substrate specificity of Bacillus cereus adenosine phosphorylase.,Dessanti P, Zhang Y, Allegrini S, Tozzi MG, Sgarrella F, Ealick SE Acta Crystallogr D Biol Crystallogr. 2012 Mar;68(Pt 3):239-48. Epub 2012 Feb 14. PMID:22349225<ref>PMID:22349225</ref>		Structural basis of the substrate specificity of Bacillus cereus adenosine phosphorylase.,Dessanti P, Zhang Y, Allegrini S, Tozzi MG, Sgarrella F, Ealick SE Acta Crystallogr D Biol Crystallogr. 2012 Mar;68(Pt 3):239-48. Epub 2012 Feb 14. PMID:22349225<ref>PMID:22349225</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, 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>

Line 26:		Line 26:
	[[Category: Bacillus cereus]]		[[Category: Bacillus cereus]]
	[[Category: Purine-nucleoside phosphorylase]]		[[Category: Purine-nucleoside phosphorylase]]
-	[[Category: Allegrini, S.]]	+	[[Category: Allegrini, S]]
-	[[Category: Dessanti, P.]]	+	[[Category: Dessanti, P]]
-	[[Category: Ealick, S E.]]	+	[[Category: Ealick, S E]]
-	[[Category: Sgarrella, F.]]	+	[[Category: Sgarrella, F]]
-	[[Category: Tozzi, M G.]]	+	[[Category: Tozzi, M G]]
-	[[Category: Zhang, Y.]]	+	[[Category: Zhang, Y]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 05:59, 5 June 2014

OCA — Thu, 05 Jun 2014 05:59:58 GMT

←Older revision		Revision as of 05:59, 5 June 2014
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-	[[~~Image:~~3uav.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal structure of adenosine phosphorylase from Bacillus cereus==
		+	<StructureSection load='3uav' size='340' side='right' caption='[[3uav]], [[Resolution\|resolution]] 1.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3uav]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_cereus Bacillus cereus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UAV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UAV FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3uaw\|3uaw]], [[3uax\|3uax]], [[3uay\|3uay]], [[3uaz\|3uaz]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">deoD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1396 Bacillus cereus])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Purine-nucleoside_phosphorylase Purine-nucleoside phosphorylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.1 2.4.2.1] </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=3uav FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uav OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3uav RCSB], [http://www.ebi.ac.uk/pdbsum/3uav PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Purine nucleoside phosphorylases catalyze the phosphorolytic cleavage of the glycosidic bond of purine (2'-deoxy)nucleosides, generating the corresponding free base and (2'-deoxy)ribose 1-phosphate. Two classes of PNPs have been identified: homotrimers specific for 6-oxopurines and homohexamers that accept both 6-oxopurines and 6-aminopurines. Bacillus cereus adenosine phosphorylase (AdoP) is a hexameric PNP; however, it is highly specific for 6-aminopurines. To investigate the structural basis for the unique substrate specificity of AdoP, the active-site mutant D204N was prepared and kinetically characterized and the structures of the wild-type protein and the D204N mutant complexed with adenosine and sulfate or with inosine and sulfate were determined at high resolution (1.2-1.4 A). AdoP interacts directly with the preferred substrate through a hydrogen-bond donation from the catalytically important residue Asp204 to N7 of the purine base. Comparison with Escherichia coli PNP revealed a more optimal orientation of Asp204 towards N7 of adenosine and a more closed active site. When inosine is bound, two water molecules are interposed between Asp204 and the N7 and O6 atoms of the nucleoside, thus allowing the enzyme to find alternative but less efficient ways to stabilize the transition state. The mutation of Asp204 to asparagine led to a significant decrease in catalytic efficiency for adenosine without affecting the efficiency of inosine cleavage.

-	~~<!--~~	+	Structural basis of the substrate specificity of Bacillus cereus adenosine phosphorylase.,Dessanti P, Zhang Y, Allegrini S, Tozzi MG, Sgarrella F, Ealick SE Acta Crystallogr D Biol Crystallogr. 2012 Mar;68(Pt 3):239-48. Epub 2012 Feb 14. PMID:22349225<ref>PMID:22349225</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_3uav"~~, ~~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_3uav\| PDB=3uav \| SCENE= }}~~	+

-	~~===Crystal structure~~ of ~~adenosine phosphorylase from Bacillus cereus===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-		+	==See Also==
-	~~<!--~~	+	*[[Purine nucleoside phosphorylase\|Purine nucleoside phosphorylase]]
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_22349225}}, adds the Publication Abstract to the page~~	+	== References ==
-	~~(as it appears on PubMed at http://www.pubmed.gov), where 22349225 is the PubMed ID number.~~	+	<references/>
-	~~-->~~	+	__TOC__
-	~~{{ABSTRACT_PUBMED_22349225}}~~	+	</StructureSection>
-		+
-	==~~About this Structure~~==	+
-	[[~~3uav~~]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_cereus Bacillus cereus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UAV OCA].	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:022349225<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Bacillus cereus]]		[[Category: Bacillus cereus]]
	[[Category: Purine-nucleoside phosphorylase]]		[[Category: Purine-nucleoside phosphorylase]]

OCA at 04:53, 8 March 2012

OCA — Thu, 08 Mar 2012 04:53:00 GMT

←Older revision		Revision as of 04:53, 8 March 2012
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-	[[Image:3uav.~~jpg~~\|left\|200px]]	+	[[Image:3uav.png\|left\|200px]]

	<!--		<!--
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	===Crystal structure of adenosine phosphorylase from Bacillus cereus===		===Crystal structure of adenosine phosphorylase from Bacillus cereus===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_22349225}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 22349225 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_22349225}}

	==About this Structure==		==About this Structure==
	[[3uav]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_cereus Bacillus cereus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UAV OCA].		[[3uav]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_cereus Bacillus cereus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UAV OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:022349225</ref><references group="xtra"/>
	[[Category: Bacillus cereus]]		[[Category: Bacillus cereus]]
	[[Category: Purine-nucleoside phosphorylase]]		[[Category: Purine-nucleoside phosphorylase]]

OCA at 09:00, 29 February 2012

OCA — Wed, 29 Feb 2012 09:00:25 GMT

←Older revision		Revision as of 09:00, 29 February 2012
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-	~~'''Unreleased structure'''~~	+	[[Image:3uav.jpg\|left\|200px]]

-	The ~~entry 3uav~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3uav", 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_3uav\| PDB=3uav \| SCENE= }}

-	~~Authors: Dessanti, P., Zhang, Y., Allegrini, S., Tozzi, M.G., Sgarrella, F., Ealick, S.E.~~	+	===Crystal structure of adenosine phosphorylase from Bacillus cereus===

-	~~Description: Crystal~~ structure ~~of adenosine phosphorylase~~ from Bacillus cereus	+
		+	==About this Structure==
		+	[[3uav]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_cereus Bacillus cereus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UAV OCA].
		+	[[Category: Bacillus cereus]]
		+	[[Category: Purine-nucleoside phosphorylase]]
		+	[[Category: Allegrini, S.]]
		+	[[Category: Dessanti, P.]]
		+	[[Category: Ealick, S E.]]
		+	[[Category: Sgarrella, F.]]
		+	[[Category: Tozzi, M G.]]
		+	[[Category: Zhang, Y.]]
		+	[[Category: Transferase]]

OCA at 10:12, 18 January 2012

OCA — Wed, 18 Jan 2012 10:12:59 GMT

←Older revision		Revision as of 10:12, 18 January 2012
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3uav is ON HOLD	+	The entry 3uav is ON HOLD until Paper Publication

	Authors: Dessanti, P., Zhang, Y., Allegrini, S., Tozzi, M.G., Sgarrella, F., Ealick, S.E.		Authors: Dessanti, P., Zhang, Y., Allegrini, S., Tozzi, M.G., Sgarrella, F., Ealick, S.E.

	Description: Crystal structure of adenosine phosphorylase from Bacillus cereus		Description: Crystal structure of adenosine phosphorylase from Bacillus cereus

OCA: Protected "3uav" [edit=sysop:move=sysop]

OCA — Wed, 02 Nov 2011 07:59:51 GMT

Protected "3uav" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:59, 2 November 2011

OCA: New page: '''Unreleased structure''' The entry 3uav is ON HOLD Authors: Dessanti, P., Zhang, Y., Allegrini, S., Tozzi, M.G., Sgarrella, F., Ealick, S.E. Description: Crystal structure of adenosi...

OCA — Wed, 02 Nov 2011 07:59:50 GMT

New page: '''Unreleased structure''' The entry 3uav is ON HOLD Authors: Dessanti, P., Zhang, Y., Allegrini, S., Tozzi, M.G., Sgarrella, F., Ealick, S.E. Description: Crystal structure of adenosi...

New page

'''Unreleased structure'''

The entry 3uav is ON HOLD

Authors: Dessanti, P., Zhang, Y., Allegrini, S., Tozzi, M.G., Sgarrella, F., Ealick, S.E.

Description: Crystal structure of adenosine phosphorylase from Bacillus cereus