3q9e - Revision history

OCA at 11:38, 14 March 2024

OCA — Thu, 14 Mar 2024 11:38:05 GMT

←Older revision		Revision as of 11:38, 14 March 2024
Line 3:		Line 3:
	<StructureSection load='3q9e' size='340' side='right'caption='[[3q9e]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='3q9e' size='340' side='right'caption='[[3q9e]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3q9e]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_49678 Atcc 49678~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3Q9E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3Q9E FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3q9e]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycoplana_ramosa Mycoplana ramosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3Q9E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3Q9E FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SP5:N-[3-({4-[(3-AMINOPROPYL)AMINO]BUTYL}AMINO)PROPYL]ACETAMIDE'>SP5</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 2.5Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3q9b\|3q9b]], [[3q9c\|3q9c]], [[3q9f\|3q9f]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SP5:N-[3-({4-[(3-AMINOPROPYL)AMINO]BUTYL}AMINO)PROPYL]ACETAMIDE'>SP5</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">aphA, aph ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=40837 ATCC 49678])~~</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=3q9e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3q9e OCA], [https://pdbe.org/3q9e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3q9e RCSB], [https://www.ebi.ac.uk/pdbsum/3q9e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3q9e 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=3q9e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3q9e OCA], [https://pdbe.org/3q9e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3q9e RCSB], [https://www.ebi.ac.uk/pdbsum/3q9e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3q9e ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~APHA_MYCRA APHA_MYCRA~~]~~] Acts on many types of acetylpolyamines~~. ~~Has high affinity towards~~ acetylputrescine, acetylcadaverine, acetylspermidine, ~~and acetylspermine~~. ~~Acts on~~ L-Lys-(epsilon-acetyl)-coumarin, but has very low activity towards ~~acetylated peptides.~~	+	[https://www.uniprot.org/uniprot/APAH_MYCRA APAH_MYCRA] Involved in polyamine metabolism. Catalyzes the deacetylation of various acetylated polyamines such as N-acetylputrescine, N-acetylcadaverine, N(1)-acetylspermine, N(1)-acetylspermidine and N(8)-acetylspermidine (PubMed:8824626, PubMed:3207420). In vitro, is also able to deacetylate L-Lys(epsilon-acetyl)coumarin, but has very low activity towards the larger tetrapeptide N-acetyl-L-Arg-L-His-L-Lys(epsilon-acetyl)-L-Lys(epsilon-acetyl)coumarin (PubMed:21268586).<ref>PMID:21268586</ref> <ref>PMID:3207420</ref> <ref>PMID:8824626</ref>
-	~~<div style="background~~-~~color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Polyamines are a ubiquitous class of polycationic small molecules that can influence gene expression by binding to nucleic acids. Reversible polyamine acetylation regulates nucleic acid binding and is required for normal cell cycle progression and proliferation. Here, we report the structures of Mycoplana ramosa acetylpolyamine amidohydrolase (~~APAH~~) ~~complexed with a transition state analogue and a hydroxamate inhibitor and an inactive mutant complexed with two acetylpolyamine substrates. The structure of APAH is the first of a histone deacetylase~~-~~like oligomer and reveals that an 18-residue insert in the L2 loop promotes dimerization and the formation of an 18 A long "~~L"-shaped active site tunnel at the dimer interface, accessible only to narrow and flexible substrates. The importance of dimerization for polyamine deacetylase function leads to the suggestion that a comparable dimeric or double-~~domain histone deacetylase could catalyze polyamine deacetylation reactions in eukaryotes.~~	+
-		+
-	Structure of Prokaryotic Polyamine Deacetylase Reveals Evolutionary Functional Relationships with Eukaryotic Histone Deacetylases .,Lombardi PM, Angell HD, Whittington DA, Flynn EF, Rajashankar KR, Christianson DW Biochemistry. 2011 Jan 26. PMID:21268586<ref>PMID:21268586</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.~~<br>	+
-	</~~div~~>	+
-	<~~div class="pdbe-citations 3q9e" style="background-color:#fffaf0;"~~></~~div~~>	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 49678]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Christianson, D W~~]]	+	[[Category: Mycoplana ramosa]]
-	[[Category: ~~Lombardi, P M~~]]	+	[[Category: Christianson DW]]
-	[[Category: ~~Arginase fold]]~~	+	[[Category: Lombardi PM]]
-	~~[[Category: Deacetylase]]~~	+
-	~~[[Category: Hdac]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Polyamine~~]]	+

OCA at 05:58, 8 June 2022

OCA — Wed, 08 Jun 2022 05:58:44 GMT

←Older revision		Revision as of 05:58, 8 June 2022
Line 1:		Line 1:

	==Crystal structure of H159A APAH complexed with acetylspermine==		==Crystal structure of H159A APAH complexed with acetylspermine==
-	<StructureSection load='3q9e' size='340' side='right' caption='[[3q9e]], [[Resolution\|resolution]] 2.50Å' scene=''>	+	<StructureSection load='3q9e' size='340' side='right'caption='[[3q9e]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3q9e]] is a 12 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_49678 Atcc 49678]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3Q9E OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3Q9E FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3q9e]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_49678 Atcc 49678]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3Q9E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3Q9E FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SP5:N-[3-({4-[(3-AMINOPROPYL)AMINO]BUTYL}AMINO)PROPYL]ACETAMIDE'>SP5</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SP5:N-[3-({4-[(3-AMINOPROPYL)AMINO]BUTYL}AMINO)PROPYL]ACETAMIDE'>SP5</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3q9b\|3q9b]], [[3q9c\|3q9c]], [[3q9f\|3q9f]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3q9b\|3q9b]], [[3q9c\|3q9c]], [[3q9f\|3q9f]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">aphA, aph ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=40837 ATCC 49678])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">aphA, aph ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=40837 ATCC 49678])</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=3q9e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3q9e OCA], [~~http~~://pdbe.org/3q9e PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3q9e RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3q9e PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3q9e 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=3q9e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3q9e OCA], [https://pdbe.org/3q9e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3q9e RCSB], [https://www.ebi.ac.uk/pdbsum/3q9e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3q9e ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/APHA_MYCRA APHA_MYCRA]] Acts on many types of acetylpolyamines. Has high affinity towards acetylputrescine, acetylcadaverine, acetylspermidine, and acetylspermine. Acts on L-Lys-(epsilon-acetyl)-coumarin, but has very low activity towards acetylated peptides.	+	[[https://www.uniprot.org/uniprot/APHA_MYCRA APHA_MYCRA]] Acts on many types of acetylpolyamines. Has high affinity towards acetylputrescine, acetylcadaverine, acetylspermidine, and acetylspermine. Acts on L-Lys-(epsilon-acetyl)-coumarin, but has very low activity towards acetylated peptides.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 49678]]		[[Category: Atcc 49678]]
		+	[[Category: Large Structures]]
	[[Category: Christianson, D W]]		[[Category: Christianson, D W]]
	[[Category: Lombardi, P M]]		[[Category: Lombardi, P M]]

OCA at 15:23, 4 August 2016

OCA — Thu, 04 Aug 2016 15:23:46 GMT

←Older revision		Revision as of 15:23, 4 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of H159A APAH complexed with acetylspermine==		==Crystal structure of H159A APAH complexed with acetylspermine==
	<StructureSection load='3q9e' size='340' side='right' caption='[[3q9e]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='3q9e' size='340' side='right' caption='[[3q9e]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3q9e]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Mycoplana_ramosa Mycoplana ramosa~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3Q9E OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3Q9E FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3q9e]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_49678 Atcc 49678]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3Q9E OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3Q9E FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SP5:N-[3-({4-[(3-AMINOPROPYL)AMINO]BUTYL}AMINO)PROPYL]ACETAMIDE'>SP5</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SP5:N-[3-({4-[(3-AMINOPROPYL)AMINO]BUTYL}AMINO)PROPYL]ACETAMIDE'>SP5</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3q9b\|3q9b]], [[3q9c\|3q9c]], [[3q9f\|3q9f]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3q9b\|3q9b]], [[3q9c\|3q9c]], [[3q9f\|3q9f]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">aphA, aph ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=40837 ~~Mycoplana ramosa~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">aphA, aph ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=40837 ATCC 49678])</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=3q9e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3q9e OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3q9e RCSB], [http://www.ebi.ac.uk/pdbsum/3q9e 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=3q9e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3q9e OCA], [http://pdbe.org/3q9e PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3q9e RCSB], [http://www.ebi.ac.uk/pdbsum/3q9e PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3q9e ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	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 3q9e" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Mycoplana ramosa~~]]	+	[[Category: Atcc 49678]]
	[[Category: Christianson, D W]]		[[Category: Christianson, D W]]
	[[Category: Lombardi, P M]]		[[Category: Lombardi, P M]]

OCA at 10:31, 25 December 2014

OCA — Thu, 25 Dec 2014 10:31:49 GMT

←Older revision		Revision as of 10:31, 25 December 2014
Line 8:		Line 8:
	<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=3q9e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3q9e OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3q9e RCSB], [http://www.ebi.ac.uk/pdbsum/3q9e 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=3q9e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3q9e OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3q9e RCSB], [http://www.ebi.ac.uk/pdbsum/3q9e PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/APHA_MYCRA APHA_MYCRA]] Acts on many types of acetylpolyamines. Has high affinity towards acetylputrescine, acetylcadaverine, acetylspermidine, and acetylspermine. Acts on L-Lys-(epsilon-acetyl)-coumarin, but has very low activity towards acetylated peptides.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 11:00, 19 December 2014

OCA — Fri, 19 Dec 2014 11:00:34 GMT

←Older revision		Revision as of 11:00, 19 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3q9e\| PDB=3q9e \| SCENE= }}~~	+	==Crystal structure of H159A APAH complexed with acetylspermine==
-	===Crystal structure of H159A APAH complexed with acetylspermine===	+	<StructureSection load='3q9e' size='340' side='right' caption='[[3q9e]], [[Resolution\|resolution]] 2.50Å' scene=''>
-	{~~{ABSTRACT_PUBMED_21268586}~~}	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3q9e]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycoplana_ramosa Mycoplana ramosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3Q9E OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3Q9E FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SP5:N-[3-({4-[(3-AMINOPROPYL)AMINO]BUTYL}AMINO)PROPYL]ACETAMIDE'>SP5</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3q9b\|3q9b]], [[3q9c\|3q9c]], [[3q9f\|3q9f]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">aphA, aph ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=40837 Mycoplana ramosa])</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=3q9e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3q9e OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3q9e RCSB], [http://www.ebi.ac.uk/pdbsum/3q9e PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Polyamines are a ubiquitous class of polycationic small molecules that can influence gene expression by binding to nucleic acids. Reversible polyamine acetylation regulates nucleic acid binding and is required for normal cell cycle progression and proliferation. Here, we report the structures of Mycoplana ramosa acetylpolyamine amidohydrolase (APAH) complexed with a transition state analogue and a hydroxamate inhibitor and an inactive mutant complexed with two acetylpolyamine substrates. The structure of APAH is the first of a histone deacetylase-like oligomer and reveals that an 18-residue insert in the L2 loop promotes dimerization and the formation of an 18 A long "L"-shaped active site tunnel at the dimer interface, accessible only to narrow and flexible substrates. The importance of dimerization for polyamine deacetylase function leads to the suggestion that a comparable dimeric or double-domain histone deacetylase could catalyze polyamine deacetylation reactions in eukaryotes.

-	~~==Function==~~	+	Structure of Prokaryotic Polyamine Deacetylase Reveals Evolutionary Functional Relationships with Eukaryotic Histone Deacetylases .,Lombardi PM, Angell HD, Whittington DA, Flynn EF, Rajashankar KR, Christianson DW Biochemistry. 2011 Jan 26. PMID:21268586<ref>PMID:21268586</ref>
-	~~[[http://www.uniprot.org/uniprot/APHA_MYCRA APHA_MYCRA]] Acts on many types~~ of ~~acetylpolyamines~~. ~~Has high affinity towards acetylputrescine~~, ~~acetylcadaverine~~, ~~acetylspermidine~~, ~~and acetylspermine. Acts on L-Lys-(epsilon-acetyl)-coumarin~~, ~~but has very low activity towards acetylated peptides~~.	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[3q9e]] is~~ a ~~12 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Mycoplana_ramosa Mycoplana ramosa]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3Q9E OCA].~~	+	</div>
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:021268586</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Mycoplana ramosa]]		[[Category: Mycoplana ramosa]]
-	[[Category: Christianson, D W.]]	+	[[Category: Christianson, D W]]
-	[[Category: Lombardi, P M.]]	+	[[Category: Lombardi, P M]]
	[[Category: Arginase fold]]		[[Category: Arginase fold]]
	[[Category: Deacetylase]]		[[Category: Deacetylase]]

OCA at 08:25, 8 May 2013

OCA — Wed, 08 May 2013 08:25:13 GMT

←Older revision		Revision as of 08:25, 8 May 2013
Line 1:		Line 1:
-	[[Image:3q9e.png\|left\|200px]]
-
-	<!--
-	The line below this paragraph, containing "STRUCTURE_3q9e", 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_3q9e\| PDB=3q9e \| SCENE= }}		{{STRUCTURE_3q9e\| PDB=3q9e \| SCENE= }}
-
	===Crystal structure of H159A APAH complexed with acetylspermine===		===Crystal structure of H159A APAH complexed with acetylspermine===
		+	{{ABSTRACT_PUBMED_21268586}}

-		+	==Function==
-	~~<!--~~	+	[[http://www.uniprot.org/uniprot/APHA_MYCRA APHA_MYCRA]] Acts on many types of acetylpolyamines. Has high affinity towards acetylputrescine, acetylcadaverine, acetylspermidine, and acetylspermine. Acts on L-Lys-(epsilon-acetyl)-coumarin, but has very low activity towards acetylated peptides.
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_21268586}}, adds the Publication Abstract to the page~~	+
-	~~(as it appears on PubMed at~~ http://www.~~pubmed~~.~~gov)~~, ~~where 21268586 is the PubMed ID number~~.	+
-	-->	+
-	~~{{ABSTRACT_PUBMED_21268586}}~~	+

	==About this Structure==		==About this Structure==
Line 22:		Line 10:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~21268586~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:021268586</ref><references group="xtra"/><references/>
	[[Category: Mycoplana ramosa]]		[[Category: Mycoplana ramosa]]
	[[Category: Christianson, D W.]]		[[Category: Christianson, D W.]]
	[[Category: Lombardi, P M.]]		[[Category: Lombardi, P M.]]
		+	[[Category: Arginase fold]]
		+	[[Category: Deacetylase]]
		+	[[Category: Hdac]]
		+	[[Category: Hydrolase]]
		+	[[Category: Polyamine]]

OCA at 07:22, 30 March 2011

OCA — Wed, 30 Mar 2011 07:22:23 GMT

←Older revision		Revision as of 07:22, 30 March 2011
Line 1:		Line 1:
-	[[Image:3q9e.~~jpg~~\|left\|200px]]	+	[[Image:3q9e.png\|left\|200px]]

	<!--		<!--

OCA at 06:57, 2 March 2011

OCA — Wed, 02 Mar 2011 06:57:38 GMT

←Older revision		Revision as of 06:57, 2 March 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3q9e.jpg\|left\|200px]]

-	The ~~entry 3q9e~~ is ~~ON HOLD~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3q9e", 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_3q9e\| PDB=3q9e \| SCENE= }}

-	~~Authors: Lombardi, P.M., Christianson, D.W.~~	+	===Crystal structure of H159A APAH complexed with acetylspermine===

-	~~Description~~: ~~Crystal~~ structure ~~of H159A APAH complexed~~ with ~~acetylspermine~~	+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21268586}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21268586 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21268586}}
		+
		+	==About this Structure==
		+	[[3q9e]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycoplana_ramosa Mycoplana ramosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3Q9E OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:21268586</ref><references group="xtra"/>
		+	[[Category: Mycoplana ramosa]]
		+	[[Category: Christianson, D W.]]
		+	[[Category: Lombardi, P M.]]

OCA: Protected "3q9e" [edit=sysop:move=sysop]

OCA — Wed, 19 Jan 2011 05:51:45 GMT

Protected "3q9e" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:51, 19 January 2011

OCA: New page: '''Unreleased structure''' The entry 3q9e is ON HOLD Authors: Lombardi, P.M., Christianson, D.W. Description: Crystal structure of H159A APAH complexed with acetylspermine

OCA — Wed, 19 Jan 2011 05:51:45 GMT

New page: '''Unreleased structure''' The entry 3q9e is ON HOLD Authors: Lombardi, P.M., Christianson, D.W. Description: Crystal structure of H159A APAH complexed with acetylspermine

New page

'''Unreleased structure'''

The entry 3q9e is ON HOLD

Authors: Lombardi, P.M., Christianson, D.W.

Description: Crystal structure of H159A APAH complexed with acetylspermine