1pj6 - Revision history

OCA at 09:43, 16 August 2023

2023-08-16T09:43:57Z

←Older revision		Revision as of 09:43, 16 August 2023
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	<StructureSection load='1pj6' size='340' side='right'caption='[[1pj6]], [[Resolution\|resolution]] 1.65Å' scene=''>		<StructureSection load='1pj6' size='340' side='right'caption='[[1pj6]], [[Resolution\|resolution]] 1.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1pj6]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"achromobacter_globiformis"_(conn_1928)_bergey_et_al._1930 "achromobacter~~ globiformis~~" (conn 1928) bergey et al. 1930~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PJ6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PJ6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1pj6]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Arthrobacter_globiformis Arthrobacter globiformis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PJ6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PJ6 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=FAD:FLAVIN~~-~~ADENINE+DINUCLEOTIDE'>FAD</scene>~~, ~~<scene name='pdbligand=FOL:FOLIC+ACID'>FOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 1.65Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[1pj5\|1pj5]], [[1pj7\|1pj7]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=FOL:FOLIC+ACID'>FOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Dimethylglycine_oxidase Dimethylglycine oxidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.5.3.10 1.5.3.10]~~ </~~span~~></td></tr>	+
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1pj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pj6 OCA], [https://pdbe.org/1pj6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1pj6 RCSB], [https://www.ebi.ac.uk/pdbsum/1pj6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1pj6 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=1pj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pj6 OCA], [https://pdbe.org/1pj6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1pj6 RCSB], [https://www.ebi.ac.uk/pdbsum/1pj6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1pj6 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/DMGO_ARTGO DMGO_ARTGO] Catalyzes the oxidative demethylation of N,N-dimethylglycine to yield sarcosine, formaldehyde and hydrogen peroxide. The oxidation of dimethylglycine is coupled to the synthesis of 5,10-methylenetetrahydrofolate through an unusual substrate channeling mechanism. This channeling occurs by nonbiased diffusion of the iminium intermediate through a large solvent cavity connecting active site 1 (N-terminus) and active site 2 (C-terminus). The synthesis of 5,10-methylenetetrahydrofolate (at active site 2) prevents the accumulation of formaldehyde, formed by hydrolysis of the iminium intermediate product (at active site 1). Does not oxidize sarcosine.<ref>PMID:11422368</ref> <ref>PMID:11926836</ref> <ref>PMID:12912903</ref> <ref>PMID:19369258</ref>
	== 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: ~~Dimethylglycine oxidase~~]]	+	[[Category: Arthrobacter globiformis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Basran, J]]	+	[[Category: Basran J]]
-	[[Category: Leys, D]]	+	[[Category: Leys D]]
-	[[Category: Scrutton~~, N S]]~~	+	[[Category: Scrutton NS]]
-	~~[[Category: Amine oxidation]]~~	+
-	~~[[Category: Channelling]]~~	+
-	~~[[Category: Fad binding]]~~	+
-	~~[[Category: Folate binding]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 09:30, 8 September 2021

2021-09-08T09:30:32Z

←Older revision		Revision as of 09:30, 8 September 2021
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	<StructureSection load='1pj6' size='340' side='right'caption='[[1pj6]], [[Resolution\|resolution]] 1.65Å' scene=''>		<StructureSection load='1pj6' size='340' side='right'caption='[[1pj6]], [[Resolution\|resolution]] 1.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1pj6]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"achromobacter_globiformis"_(conn_1928)_bergey_et_al._1930 "achromobacter globiformis" (conn 1928) bergey et al. 1930]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PJ6 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1PJ6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1pj6]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"achromobacter_globiformis"_(conn_1928)_bergey_et_al._1930 "achromobacter globiformis" (conn 1928) bergey et al. 1930]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PJ6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PJ6 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=FOL:FOLIC+ACID'>FOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=FOL:FOLIC+ACID'>FOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1pj5\|1pj5]], [[1pj7\|1pj7]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1pj5\|1pj5]], [[1pj7\|1pj7]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Dimethylglycine_oxidase Dimethylglycine oxidase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.5.3.10 1.5.3.10] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Dimethylglycine_oxidase Dimethylglycine oxidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.5.3.10 1.5.3.10] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1pj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pj6 OCA], [~~http~~://pdbe.org/1pj6 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1pj6 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1pj6 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1pj6 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=1pj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pj6 OCA], [https://pdbe.org/1pj6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1pj6 RCSB], [https://www.ebi.ac.uk/pdbsum/1pj6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1pj6 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 09:54, 27 November 2019

2019-11-27T09:54:34Z

←Older revision		Revision as of 09:54, 27 November 2019
Line 1:		Line 1:

	==Crystal structure of dimethylglycine oxidase of Arthrobacter globiformis in complex with folic acid==		==Crystal structure of dimethylglycine oxidase of Arthrobacter globiformis in complex with folic acid==
-	<StructureSection load='1pj6' size='340' side='right' caption='[[1pj6]], [[Resolution\|resolution]] 1.65Å' scene=''>	+	<StructureSection load='1pj6' size='340' side='right'caption='[[1pj6]], [[Resolution\|resolution]] 1.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1pj6]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"achromobacter_globiformis"_(conn_1928)_bergey_et_al._1930 "achromobacter globiformis" (conn 1928) bergey et al. 1930]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PJ6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PJ6 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1pj6]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"achromobacter_globiformis"_(conn_1928)_bergey_et_al._1930 "achromobacter globiformis" (conn 1928) bergey et al. 1930]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PJ6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PJ6 FirstGlance]. <br>
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	</StructureSection>		</StructureSection>
	[[Category: Dimethylglycine oxidase]]		[[Category: Dimethylglycine oxidase]]
		+	[[Category: Large Structures]]
	[[Category: Basran, J]]		[[Category: Basran, J]]
	[[Category: Leys, D]]		[[Category: Leys, D]]

OCA at 07:30, 15 February 2018

2018-02-15T07:30:18Z

←Older revision		Revision as of 07:30, 15 February 2018
Line 1:		Line 1:
		+
	==Crystal structure of dimethylglycine oxidase of Arthrobacter globiformis in complex with folic acid==		==Crystal structure of dimethylglycine oxidase of Arthrobacter globiformis in complex with folic acid==
	<StructureSection load='1pj6' size='340' side='right' caption='[[1pj6]], [[Resolution\|resolution]] 1.65Å' scene=''>		<StructureSection load='1pj6' size='340' side='right' caption='[[1pj6]], [[Resolution\|resolution]] 1.65Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1pj5\|1pj5]], [[1pj7\|1pj7]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1pj5\|1pj5]], [[1pj7\|1pj7]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dimethylglycine_oxidase Dimethylglycine oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.5.3.10 1.5.3.10] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dimethylglycine_oxidase Dimethylglycine oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.5.3.10 1.5.3.10] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1pj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pj6 OCA], [http://pdbe.org/1pj6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1pj6 RCSB], [http://www.ebi.ac.uk/pdbsum/1pj6 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=1pj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pj6 OCA], [http://pdbe.org/1pj6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1pj6 RCSB], [http://www.ebi.ac.uk/pdbsum/1pj6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1pj6 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/pj/1pj6_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pj/1pj6_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 06:22, 7 February 2016

2016-02-07T06:22:21Z

←Older revision		Revision as of 06:22, 7 February 2016
Line 16:		Line 16:
	<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=1pj6 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 22:41, 9 September 2015

2015-09-09T22:41:19Z

←Older revision		Revision as of 22:41, 9 September 2015
Line 2:		Line 2:
	<StructureSection load='1pj6' size='340' side='right' caption='[[1pj6]], [[Resolution\|resolution]] 1.65Å' scene=''>		<StructureSection load='1pj6' size='340' side='right' caption='[[1pj6]], [[Resolution\|resolution]] 1.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1pj6]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Arthrobacter_globiformis Arthrobacter~~ globiformis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PJ6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PJ6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1pj6]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"achromobacter_globiformis"_(conn_1928)_bergey_et_al._1930 "achromobacter globiformis" (conn 1928) bergey et al. 1930]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PJ6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PJ6 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=FOL:FOLIC+ACID'>FOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=FOL:FOLIC+ACID'>FOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1pj5\|1pj5]], [[1pj7\|1pj7]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1pj5\|1pj5]], [[1pj7\|1pj7]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dimethylglycine_oxidase Dimethylglycine oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.5.3.10 1.5.3.10] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dimethylglycine_oxidase Dimethylglycine oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.5.3.10 1.5.3.10] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1pj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pj6 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1pj6 RCSB], [http://www.ebi.ac.uk/pdbsum/1pj6 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=1pj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pj6 OCA], [http://pdbe.org/1pj6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1pj6 RCSB], [http://www.ebi.ac.uk/pdbsum/1pj6 PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 26:		Line 26:
	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 1pj6" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Arthrobacter globiformis]]
	[[Category: Dimethylglycine oxidase]]		[[Category: Dimethylglycine oxidase]]
	[[Category: Basran, J]]		[[Category: Basran, J]]

OCA at 06:47, 6 January 2015

2015-01-06T06:47:49Z

←Older revision		Revision as of 06:47, 6 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1pj6]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Arthrobacter_globiformis Arthrobacter globiformis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PJ6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PJ6 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1pj6]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Arthrobacter_globiformis Arthrobacter globiformis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PJ6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PJ6 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=FOL:FOLIC+ACID'>FOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=FOL:FOLIC+ACID'>FOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1pj5\|1pj5]], [[1pj7\|1pj7]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1pj5\|1pj5]], [[1pj7\|1pj7]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dimethylglycine_oxidase Dimethylglycine oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.5.3.10 1.5.3.10] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dimethylglycine_oxidase Dimethylglycine oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.5.3.10 1.5.3.10] </span></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1pj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pj6 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1pj6 RCSB], [http://www.ebi.ac.uk/pdbsum/1pj6 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=1pj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pj6 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1pj6 RCSB], [http://www.ebi.ac.uk/pdbsum/1pj6 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 32:		Line 32:
	[[Category: Arthrobacter globiformis]]		[[Category: Arthrobacter globiformis]]
	[[Category: Dimethylglycine oxidase]]		[[Category: Dimethylglycine oxidase]]
-	[[Category: Basran, J.]]	+	[[Category: Basran, J]]
-	[[Category: Leys, D.]]	+	[[Category: Leys, D]]
-	[[Category: Scrutton, N S.]]	+	[[Category: Scrutton, N S]]
	[[Category: Amine oxidation]]		[[Category: Amine oxidation]]
	[[Category: Channelling]]		[[Category: Channelling]]

OCA at 20:52, 28 September 2014

2014-09-28T20:52:07Z

←Older revision		Revision as of 20:52, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1pj6.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of dimethylglycine oxidase of Arthrobacter globiformis in complex with folic acid==
		+	<StructureSection load='1pj6' size='340' side='right' caption='[[1pj6]], [[Resolution\|resolution]] 1.65Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1pj6]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Arthrobacter_globiformis Arthrobacter globiformis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PJ6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PJ6 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=FOL:FOLIC+ACID'>FOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1pj5\|1pj5]], [[1pj7\|1pj7]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dimethylglycine_oxidase Dimethylglycine oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.5.3.10 1.5.3.10] </span></td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1pj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pj6 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1pj6 RCSB], [http://www.ebi.ac.uk/pdbsum/1pj6 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/pj/1pj6_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 ==
		+	Here we report crystal structures of dimethylglycine oxidase (DMGO) from the bacterium Arthrobacter globiformis, a bifunctional enzyme that catalyzes the oxidation of N,N-dimethyl glycine and the formation of 5,10-methylene tetrahydrofolate. The N-terminal region binds FAD covalently and oxidizes dimethylglycine to a labile iminium intermediate. The C-terminal region binds tetrahydrofolate, comprises three domains arranged in a ring-like structure and is related to the T-protein of the glycine cleavage system. The complex with folinic acid indicates that this enzyme selectively activates the N10 amino group for initial attack on the substrate. Dead-end reactions with oxidized folate are avoided by the strict stereochemical constraints imposed by the folate-binding funnel. The active sites in DMGO are approximately 40 A apart, connected by a large irregular internal cavity. The tetrahydrofolate-binding funnel serves as a transient entry-exit port, and access to the internal cavity is controlled kinetically by tetrahydrofolate binding. The internal cavity enables sequestration of the reactive iminium intermediate prior to reaction with tetrahydrofolate and avoids formation of toxic formaldehyde. This mode of channelling in DMGO is distinct from other channelling mechanisms.

-	~~{{STRUCTURE_1pj6\| PDB=1pj6 \| SCENE= }}~~	+	Channelling and formation of 'active' formaldehyde in dimethylglycine oxidase.,Leys D, Basran J, Scrutton NS EMBO J. 2003 Aug 15;22(16):4038-48. PMID:12912903<ref>PMID:12912903</ref>

-	~~===Crystal structure~~ of ~~dimethylglycine oxidase of Arthrobacter globiformis in complex with folic acid===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_12912903}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1pj6]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Arthrobacter_globiformis Arthrobacter globiformis]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1PJ6 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:012912903<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Arthrobacter globiformis]]		[[Category: Arthrobacter globiformis]]
	[[Category: Dimethylglycine oxidase]]		[[Category: Dimethylglycine oxidase]]

OCA: Protected "1pj6" [edit=sysop:move=sysop]

2012-12-19T11:55:46Z

Protected "1pj6" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:55, 19 December 2012

OCA at 11:55, 19 December 2012

2012-12-19T11:55:42Z

←Older revision		Revision as of 11:55, 19 December 2012
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-	{{Seed}}
	[[Image:1pj6.png\|left\|200px]]		[[Image:1pj6.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1pj6", 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.
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	{{STRUCTURE_1pj6\| PDB=1pj6 \| SCENE= }}		{{STRUCTURE_1pj6\| PDB=1pj6 \| SCENE= }}

	===Crystal structure of dimethylglycine oxidase of Arthrobacter globiformis in complex with folic acid===		===Crystal structure of dimethylglycine oxidase of Arthrobacter globiformis in complex with folic acid===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_12912903}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 12912903 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_12912903}}		{{ABSTRACT_PUBMED_12912903}}

	==About this Structure==		==About this Structure==
-	~~1PJ6~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Arthrobacter_globiformis Arthrobacter globiformis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PJ6 OCA].	+	[[1pj6]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Arthrobacter_globiformis Arthrobacter globiformis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PJ6 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~12912903~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:012912903</ref><references group="xtra"/>
	[[Category: Arthrobacter globiformis]]		[[Category: Arthrobacter globiformis]]
	[[Category: Dimethylglycine oxidase]]		[[Category: Dimethylglycine oxidase]]
Line 33:		Line 21:
	[[Category: Fad binding]]		[[Category: Fad binding]]
	[[Category: Folate binding]]		[[Category: Folate binding]]
-		+	[[Category: Oxidoreductase]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Mon Feb 16 11:55:53 2009''~~	+