1woh - Revision history

OCA at 13:33, 13 March 2024

OCA — Wed, 13 Mar 2024 13:33:03 GMT

←Older revision		Revision as of 13:33, 13 March 2024
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	<StructureSection load='1woh' size='340' side='right'caption='[[1woh]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='1woh' size='340' side='right'caption='[[1woh]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1woh]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"micrococcus_radiodurans"_raj_et_al._1960 "micrococcus~~ radiodurans~~" raj et al. 1960~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WOH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1WOH FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1woh]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WOH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1WOH FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~<div style='overflow: auto; max~~-~~height: 3em;'>[[1wog\|1wog]]~~, [[~~1woi~~\|~~1woi~~]]~~</div></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]] 1.75Å</td></tr>
-	~~<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en~~.~~wikipedia.org/wiki/Agmatinase Agmatinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.3.11 3.5.3.11] </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=1woh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1woh OCA], [https://pdbe.org/1woh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1woh RCSB], [https://www.ebi.ac.uk/pdbsum/1woh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1woh 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=1woh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1woh OCA], [https://pdbe.org/1woh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1woh RCSB], [https://www.ebi.ac.uk/pdbsum/1woh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1woh ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q9RZ04_DEIRA Q9RZ04_DEIRA]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=1woh 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=1woh ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Agmatine is the product of arginine decarboxylation and can be hydrolyzed by agmatinase to putrescine, the precursor for biosynthesis of higher polyamines, spermidine, and spermine. Besides being an intermediate in polyamine metabolism, recent findings indicate that agmatine may play important regulatory roles in mammals. Agmatinase is a binuclear manganese metalloenzyme and belongs to the ureohydrolase superfamily that includes arginase, formiminoglutamase, and proclavaminate amidinohydrolase. Compared with a wealth of structural information available for arginases, no three-dimensional structure of agmatinase has been reported. Agmatinase from Deinococcus radiodurans, a 304-residue protein, shows approximately 33% of sequence identity to human mitochondrial agmatinase. Here we report the crystal structure of D. radiodurans agmatinase in Mn(2+)-free, Mn(2+)-bound, and Mn(2+)-inhibitor-bound forms, representing the first structure of agmatinase. It reveals the conservation as well as variation in folding, oligomerization, and the active site of the ureohydrolase superfamily. D. radiodurans agmatinase exists as a compact homohexamer of 32 symmetry. Its binuclear manganese cluster is highly similar but not identical to the clusters of arginase and proclavaminate amidinohydrolase. The structure of the inhibited complex reveals that inhibition by 1,6-diaminohexane arises from the displacement of the metal-bridging water.
-
-	Crystal structure of agmatinase reveals structural conservation and inhibition mechanism of the ureohydrolase superfamily.,Ahn HJ, Kim KH, Lee J, Ha JY, Lee HH, Kim D, Yoon HJ, Kwon AR, Suh SW J Biol Chem. 2004 Nov 26;279(48):50505-13. Epub 2004 Sep 7. PMID:15355972<ref>PMID:15355972</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1woh" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Micrococcus~~ radiodurans ~~raj et al. 1960]]~~	+	[[Category: Deinococcus radiodurans]]
-	~~[[Category: Agmatinase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Ahn~~, H J~~]]	+	[[Category: Ahn HJ]]
-	[[Category: Ha, J Y]]	+	[[Category: Ha J-Y]]
-	[[Category: Kim, D]]	+	[[Category: Kim D]]
-	[[Category: Kim~~, K H~~]]	+	[[Category: Kim KH]]
-	[[Category: Kwon, A R]]	+	[[Category: Kwon A-R]]
-	[[Category: Lee~~, H H~~]]	+	[[Category: Lee HH]]
-	[[Category: Lee, J]]	+	[[Category: Lee J]]
-	[[Category: Suh~~, S W~~]]	+	[[Category: Suh SW]]
-	[[Category: Yoon, H J]]	+	[[Category: Yoon H-J]]
-	~~[[Category: Alpha/beta fold]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 16:23, 27 October 2021

OCA — Wed, 27 Oct 2021 16:23:36 GMT

←Older revision		Revision as of 16:23, 27 October 2021
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	<StructureSection load='1woh' size='340' side='right'caption='[[1woh]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='1woh' size='340' side='right'caption='[[1woh]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1woh]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"micrococcus_radiodurans"_raj_et_al._1960 "micrococcus radiodurans" raj et al. 1960]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WOH OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1WOH FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1woh]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/"micrococcus_radiodurans"_raj_et_al._1960 "micrococcus radiodurans" raj et al. 1960]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WOH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1WOH FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1wog\|1wog]], [[1woi\|1woi]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1wog\|1wog]], [[1woi\|1woi]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Agmatinase Agmatinase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.3.11 3.5.3.11] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Agmatinase Agmatinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.3.11 3.5.3.11] </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=1woh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1woh OCA], [~~http~~://pdbe.org/1woh PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1woh RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1woh PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1woh 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=1woh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1woh OCA], [https://pdbe.org/1woh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1woh RCSB], [https://www.ebi.ac.uk/pdbsum/1woh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1woh ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 17:20, 22 January 2020

OCA — Wed, 22 Jan 2020 17:20:55 GMT

←Older revision		Revision as of 17:20, 22 January 2020
Line 1:		Line 1:

	==Crystal Structure of Agmatinase Reveals Structural Conservation and Inhibition Mechanism of the Ureohydrolase Superfamily==		==Crystal Structure of Agmatinase Reveals Structural Conservation and Inhibition Mechanism of the Ureohydrolase Superfamily==
-	<StructureSection load='1woh' size='340' side='right' caption='[[1woh]], [[Resolution\|resolution]] 1.75Å' scene=''>	+	<StructureSection load='1woh' size='340' side='right'caption='[[1woh]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1woh]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"micrococcus_radiodurans"_raj_et_al._1960 "micrococcus radiodurans" raj et al. 1960]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WOH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1WOH FirstGlance]. <br>		<table><tr><td colspan='2'>[[1woh]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"micrococcus_radiodurans"_raj_et_al._1960 "micrococcus radiodurans" raj et al. 1960]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WOH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1WOH FirstGlance]. <br>
Line 33:		Line 33:
	[[Category: Micrococcus radiodurans raj et al. 1960]]		[[Category: Micrococcus radiodurans raj et al. 1960]]
	[[Category: Agmatinase]]		[[Category: Agmatinase]]
		+	[[Category: Large Structures]]
	[[Category: Ahn, H J]]		[[Category: Ahn, H J]]
	[[Category: Ha, J Y]]		[[Category: Ha, J Y]]

OCA at 16:06, 11 April 2018

OCA — Wed, 11 Apr 2018 16:06:29 GMT

←Older revision		Revision as of 16:06, 11 April 2018
Line 1:		Line 1:
		+
	==Crystal Structure of Agmatinase Reveals Structural Conservation and Inhibition Mechanism of the Ureohydrolase Superfamily==		==Crystal Structure of Agmatinase Reveals Structural Conservation and Inhibition Mechanism of the Ureohydrolase Superfamily==
	<StructureSection load='1woh' size='340' side='right' caption='[[1woh]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='1woh' size='340' side='right' caption='[[1woh]], [[Resolution\|resolution]] 1.75Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1wog\|1wog]], [[1woi\|1woi]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1wog\|1wog]], [[1woi\|1woi]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Agmatinase Agmatinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.3.11 3.5.3.11] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Agmatinase Agmatinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.3.11 3.5.3.11] </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=1woh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1woh OCA], [http://pdbe.org/1woh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1woh RCSB], [http://www.ebi.ac.uk/pdbsum/1woh 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=1woh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1woh OCA], [http://pdbe.org/1woh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1woh RCSB], [http://www.ebi.ac.uk/pdbsum/1woh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1woh ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/wo/1woh_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/wo/1woh_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 18:06, 8 February 2016

OCA — Mon, 08 Feb 2016 18:06:15 GMT

←Older revision		Revision as of 18:06, 8 February 2016
Line 15:		Line 15:
	<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=1woh ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 14:05, 10 September 2015

OCA — Thu, 10 Sep 2015 14:05:37 GMT

←Older revision		Revision as of 14:05, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1woh' size='340' side='right' caption='[[1woh]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='1woh' size='340' side='right' caption='[[1woh]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1woh]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Deinococcus_radiodurans Deinococcus~~ radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WOH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1WOH FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1woh]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"micrococcus_radiodurans"_raj_et_al._1960 "micrococcus radiodurans" raj et al. 1960]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WOH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1WOH FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1wog\|1wog]], [[1woi\|1woi]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1wog\|1wog]], [[1woi\|1woi]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Agmatinase Agmatinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.3.11 3.5.3.11] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Agmatinase Agmatinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.3.11 3.5.3.11] </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=1woh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1woh OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1woh RCSB], [http://www.ebi.ac.uk/pdbsum/1woh 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=1woh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1woh OCA], [http://pdbe.org/1woh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1woh RCSB], [http://www.ebi.ac.uk/pdbsum/1woh PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 25:		Line 25:
	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 1woh" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Micrococcus radiodurans raj et al. 1960]]
	[[Category: Agmatinase]]		[[Category: Agmatinase]]
-	[[Category: Deinococcus radiodurans]]
	[[Category: Ahn, H J]]		[[Category: Ahn, H J]]
	[[Category: Ha, J Y]]		[[Category: Ha, J Y]]

OCA at 13:28, 6 January 2015

OCA — Tue, 06 Jan 2015 13:28:08 GMT

←Older revision		Revision as of 13:28, 6 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1woh]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WOH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1WOH FirstGlance]. <br>		<table><tr><td colspan='2'>[[1woh]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WOH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1WOH FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1wog\|1wog]], [[1woi\|1woi]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1wog\|1wog]], [[1woi\|1woi]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Agmatinase Agmatinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.3.11 3.5.3.11] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Agmatinase Agmatinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.3.11 3.5.3.11] </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=1woh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1woh OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1woh RCSB], [http://www.ebi.ac.uk/pdbsum/1woh 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=1woh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1woh OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1woh RCSB], [http://www.ebi.ac.uk/pdbsum/1woh PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 31:		Line 31:
	[[Category: Agmatinase]]		[[Category: Agmatinase]]
	[[Category: Deinococcus radiodurans]]		[[Category: Deinococcus radiodurans]]
-	[[Category: Ahn, H J.]]	+	[[Category: Ahn, H J]]
-	[[Category: Ha, J Y.]]	+	[[Category: Ha, J Y]]
-	[[Category: Kim, D.]]	+	[[Category: Kim, D]]
-	[[Category: Kim, K H.]]	+	[[Category: Kim, K H]]
-	[[Category: Kwon, A R.]]	+	[[Category: Kwon, A R]]
-	[[Category: Lee, H H.]]	+	[[Category: Lee, H H]]
-	[[Category: Lee, J.]]	+	[[Category: Lee, J]]
-	[[Category: Suh, S W.]]	+	[[Category: Suh, S W]]
-	[[Category: Yoon, H J.]]	+	[[Category: Yoon, H J]]
	[[Category: Alpha/beta fold]]		[[Category: Alpha/beta fold]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 20:51, 29 September 2014

OCA — Mon, 29 Sep 2014 20:51:23 GMT

←Older revision		Revision as of 20:51, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1woh.~~png~~\|~~left~~\|200px]]	+	==Crystal Structure of Agmatinase Reveals Structural Conservation and Inhibition Mechanism of the Ureohydrolase Superfamily==
		+	<StructureSection load='1woh' size='340' side='right' caption='[[1woh]], [[Resolution\|resolution]] 1.75Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1woh]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WOH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1WOH FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1wog\|1wog]], [[1woi\|1woi]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Agmatinase Agmatinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.3.11 3.5.3.11] </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=1woh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1woh OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1woh RCSB], [http://www.ebi.ac.uk/pdbsum/1woh 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/wo/1woh_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 ==
		+	Agmatine is the product of arginine decarboxylation and can be hydrolyzed by agmatinase to putrescine, the precursor for biosynthesis of higher polyamines, spermidine, and spermine. Besides being an intermediate in polyamine metabolism, recent findings indicate that agmatine may play important regulatory roles in mammals. Agmatinase is a binuclear manganese metalloenzyme and belongs to the ureohydrolase superfamily that includes arginase, formiminoglutamase, and proclavaminate amidinohydrolase. Compared with a wealth of structural information available for arginases, no three-dimensional structure of agmatinase has been reported. Agmatinase from Deinococcus radiodurans, a 304-residue protein, shows approximately 33% of sequence identity to human mitochondrial agmatinase. Here we report the crystal structure of D. radiodurans agmatinase in Mn(2+)-free, Mn(2+)-bound, and Mn(2+)-inhibitor-bound forms, representing the first structure of agmatinase. It reveals the conservation as well as variation in folding, oligomerization, and the active site of the ureohydrolase superfamily. D. radiodurans agmatinase exists as a compact homohexamer of 32 symmetry. Its binuclear manganese cluster is highly similar but not identical to the clusters of arginase and proclavaminate amidinohydrolase. The structure of the inhibited complex reveals that inhibition by 1,6-diaminohexane arises from the displacement of the metal-bridging water.

-	~~{{STRUCTURE_1woh\| PDB=1woh \| SCENE= }}~~	+	Crystal structure of agmatinase reveals structural conservation and inhibition mechanism of the ureohydrolase superfamily.,Ahn HJ, Kim KH, Lee J, Ha JY, Lee HH, Kim D, Yoon HJ, Kwon AR, Suh SW J Biol Chem. 2004 Nov 26;279(48):50505-13. Epub 2004 Sep 7. PMID:15355972<ref>PMID:15355972</ref>

-	~~===Crystal Structure of Agmatinase Reveals Structural Conservation and Inhibition Mechanism~~ of the ~~Ureohydrolase Superfamily===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_15355972}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1woh]] is a 6 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1WOH OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:015355972<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Agmatinase]]		[[Category: Agmatinase]]
	[[Category: Deinococcus radiodurans]]		[[Category: Deinococcus radiodurans]]

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

OCA — Sat, 05 Jan 2013 11:45:43 GMT

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

←Older revision

Revision as of 11:45, 5 January 2013

OCA at 11:45, 5 January 2013

OCA — Sat, 05 Jan 2013 11:45:40 GMT

←Older revision		Revision as of 11:45, 5 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1woh.png\|left\|200px]]		[[Image:1woh.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1woh", 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_1woh\| PDB=1woh \| SCENE= }}		{{STRUCTURE_1woh\| PDB=1woh \| SCENE= }}

	===Crystal Structure of Agmatinase Reveals Structural Conservation and Inhibition Mechanism of the Ureohydrolase Superfamily===		===Crystal Structure of Agmatinase Reveals Structural Conservation and Inhibition Mechanism of the Ureohydrolase Superfamily===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_15355972}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 15355972 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_15355972}}		{{ABSTRACT_PUBMED_15355972}}

	==About this Structure==		==About this Structure==
-	~~1WOH~~ is a 6 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WOH OCA].	+	[[1woh]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WOH OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~15355972~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:015355972</ref><references group="xtra"/>
	[[Category: Agmatinase]]		[[Category: Agmatinase]]
	[[Category: Deinococcus radiodurans]]		[[Category: Deinococcus radiodurans]]
Line 36:		Line 24:
	[[Category: Yoon, H J.]]		[[Category: Yoon, H J.]]
	[[Category: Alpha/beta fold]]		[[Category: Alpha/beta fold]]
-		+	[[Category: Hydrolase]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Tue Feb 17 01:00:06 2009''~~	+