4o61 - Revision history

OCA at 17:07, 20 September 2023

OCA — Wed, 20 Sep 2023 17:07:33 GMT

←Older revision		Revision as of 17:07, 20 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4o61]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O61 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4O61 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4o61]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O61 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4O61 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</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]] 1.9Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene></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=4o61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o61 OCA], [https://pdbe.org/4o61 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4o61 RCSB], [https://www.ebi.ac.uk/pdbsum/4o61 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4o61 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=4o61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o61 OCA], [https://pdbe.org/4o61 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4o61 RCSB], [https://www.ebi.ac.uk/pdbsum/4o61 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4o61 ProSAT]</span></td></tr>
	</table>		</table>

OCA at 08:57, 18 January 2023

OCA — Wed, 18 Jan 2023 08:57:16 GMT

←Older revision		Revision as of 08:57, 18 January 2023
Line 1:		Line 1:

	==Structure of human ALKBH5 crystallized in the presence of citrate==		==Structure of human ALKBH5 crystallized in the presence of citrate==
-	<StructureSection load='4o61' size='340' side='right' caption='[[4o61]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='4o61' size='340' side='right'caption='[[4o61]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4o61]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O61 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4O61 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4o61]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O61 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4O61 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ALKBH5, ABH5, OFOXD1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])~~</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=4o61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o61 OCA], [https://pdbe.org/4o61 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4o61 RCSB], [https://www.ebi.ac.uk/pdbsum/4o61 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4o61 ProSAT]</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=4o61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o61 OCA], [~~http~~://pdbe.org/4o61 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4o61 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4o61 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4o61 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/ALKB5_HUMAN ALKB5_HUMAN]] Dioxygenase that demethylates RNA by oxidative demethylation: specifically demethylates N(6)-methyladenosine (m(6)A) RNA, the most prevalent internal modification of messenger RNA (mRNA) in higher eukaryotes. Requires molecular oxygen, alpha-ketoglutarate and iron. Demethylation of m(6)A mRNA affects mRNA processing and export and is required for spermatogenesis.<ref>PMID:21264265</ref> <ref>PMID:23177736</ref>	+	[https://www.uniprot.org/uniprot/ALKB5_HUMAN ALKB5_HUMAN] Dioxygenase that demethylates RNA by oxidative demethylation: specifically demethylates N(6)-methyladenosine (m(6)A) RNA, the most prevalent internal modification of messenger RNA (mRNA) in higher eukaryotes. Requires molecular oxygen, alpha-ketoglutarate and iron. Demethylation of m(6)A mRNA affects mRNA processing and export and is required for spermatogenesis.<ref>PMID:21264265</ref> <ref>PMID:23177736</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 19:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 4o61" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4o61" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Dioxygenase 3D structures\|Dioxygenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
-	[[Category: Arrowsmith~~, C H~~]]	+	[[Category: Large Structures]]
-	[[Category: Bountra, C]]	+	[[Category: Arrowsmith CH]]
-	[[Category: Cerovina, T]]	+	[[Category: Bountra C]]
-	[[Category: Chao, X]]	+	[[Category: Cerovina T]]
-	[[Category: Dong, A]]	+	[[Category: Chao X]]
-	[[Category: Edwards~~, A M~~]]	+	[[Category: Dong A]]
-	[[Category: He, H]]	+	[[Category: Edwards AM]]
-	[[Category: Liu, K]]	+	[[Category: He H]]
-	[[Category: Min, J]]	+	[[Category: Liu K]]
-	~~[[Category: Structural genomic~~]]	+	[[Category: Min J]]
-	[[Category: Tempel, W]]	+	[[Category: Tempel W]]
-	~~[[Category: Dioxygenase]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Rna demethylase]]~~	+
-	~~[[Category: Sgc~~]]	+

OCA at 12:08, 12 April 2017

OCA — Wed, 12 Apr 2017 12:08:10 GMT

←Older revision		Revision as of 12:08, 12 April 2017
Line 1:		Line 1:
		+
	==Structure of human ALKBH5 crystallized in the presence of citrate==		==Structure of human ALKBH5 crystallized in the presence of citrate==
	<StructureSection load='4o61' size='340' side='right' caption='[[4o61]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='4o61' size='340' side='right' caption='[[4o61]], [[Resolution\|resolution]] 1.90Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ALKBH5, ABH5, OFOXD1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ALKBH5, ABH5, OFOXD1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=4o61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o61 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4o61 RCSB], [http://www.ebi.ac.uk/pdbsum/4o61 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=4o61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o61 OCA], [http://pdbe.org/4o61 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4o61 RCSB], [http://www.ebi.ac.uk/pdbsum/4o61 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4o61 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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 4o61" style="background-color:#fffaf0;"></div>
-	==~~See Also==~~	+
-	*[[Dioxygenase\|Dioxygenase]]	+
	== References ==		== References ==
	<references/>		<references/>

OCA at 12:34, 1 July 2015

OCA — Wed, 01 Jul 2015 12:34:41 GMT

←Older revision		Revision as of 12:34, 1 July 2015
Line 17:		Line 17:
	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>
		+
		+	==See Also==
		+	*[[Dioxygenase\|Dioxygenase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 10:15, 25 December 2014

OCA — Thu, 25 Dec 2014 10:15:00 GMT

←Older revision		Revision as of 10:15, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4o61]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O61 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4O61 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4o61]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O61 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4O61 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ALKBH5, ABH5, OFOXD1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ALKBH5, ABH5, OFOXD1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=4o61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o61 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4o61 RCSB], [http://www.ebi.ac.uk/pdbsum/4o61 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=4o61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o61 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4o61 RCSB], [http://www.ebi.ac.uk/pdbsum/4o61 PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/ALKB5_HUMAN ALKB5_HUMAN]] Dioxygenase that demethylates RNA by oxidative demethylation: specifically demethylates N(6)-methyladenosine (m(6)A) RNA, the most prevalent internal modification of messenger RNA (mRNA) in higher eukaryotes. Requires molecular oxygen, alpha-ketoglutarate and iron. Demethylation of m(6)A mRNA affects mRNA processing and export and is required for spermatogenesis.<ref>PMID:21264265</ref> <ref>PMID:23177736</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 13:		Line 15:
	Structures of human ALKBH5 demethylase reveal a unique binding mode for specific single stranded m6A RNA demethylation.,Xu C, Liu K, Tempel W, Demetriades M, Aik W, Schofield CJ, Min J J Biol Chem. 2014 Apr 28. PMID:24778178<ref>PMID:24778178</ref>		Structures of human ALKBH5 demethylase reveal a unique binding mode for specific single stranded m6A RNA demethylation.,Xu C, Liu K, Tempel W, Demetriades M, Aik W, Schofield CJ, Min J J Biol Chem. 2014 Apr 28. PMID:24778178<ref>PMID:24778178</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>
	== References ==		== References ==
Line 20:		Line 22:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
-	[[Category: Arrowsmith, C H.]]	+	[[Category: Arrowsmith, C H]]
-	[[Category: Bountra, C.]]	+	[[Category: Bountra, C]]
-	[[Category: Cerovina, T.]]	+	[[Category: Cerovina, T]]
-	[[Category: Chao, X.]]	+	[[Category: Chao, X]]
-	[[Category: Dong, A.]]	+	[[Category: Dong, A]]
-	[[Category: Edwards, A M.]]	+	[[Category: Edwards, A M]]
-	[[Category: He, H.]]	+	[[Category: He, H]]
-	[[Category: Liu, K.]]	+	[[Category: Liu, K]]
-	[[Category: Min, J.]]	+	[[Category: Min, J]]
-	[[Category: ~~SGC,~~ Structural ~~Genomics Consortium.~~]]	+	[[Category: Structural genomic]]
-	[[Category: Tempel, W.]]	+	[[Category: Tempel, W]]
	[[Category: Dioxygenase]]		[[Category: Dioxygenase]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
	[[Category: Rna demethylase]]		[[Category: Rna demethylase]]
	[[Category: Sgc]]		[[Category: Sgc]]
-	[[Category: Structural genomics consortium]]

OCA at 04:44, 4 June 2014

OCA — Wed, 04 Jun 2014 04:44:39 GMT

←Older revision		Revision as of 04:44, 4 June 2014
Line 2:		Line 2:
	<StructureSection load='4o61' size='340' side='right' caption='[[4o61]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='4o61' size='340' side='right' caption='[[4o61]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4o61]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O61 OCA]. <br>	+	<table><tr><td colspan='2'>[[4o61]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O61 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4O61 FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene><br>		</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene><br>
	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ALKBH5, ABH5, OFOXD1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ALKBH5, ABH5, OFOXD1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </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=4o61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o61 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4o61 RCSB], [http://www.ebi.ac.uk/pdbsum/4o61 PDBsum]</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=4o61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o61 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4o61 RCSB], [http://www.ebi.ac.uk/pdbsum/4o61 PDBsum]</span></td></tr>
	<table>		<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	N6-Methyladenosine (m6A) is the most prevalent internal RNA modification in eukaryotes. ALKBH5 belongs to the AlkB family of dioxygenases and has been shown to specifically demethylate m6A in single stranded RNA. Here we report crystal structures of ALKBH5 in the presence of either its cofactors or the ALKBH5 inhibitor citrate. Catalytic assays demonstrate that the ALKBH5 catalytic domain can demethylate both ssRNA and ssDNA. We identify the tricarboxylic acid (TCA) cycle intermediate citrate as a modest inhibitor of ALKHB5 (IC50: ~488 muM). The structural analysis reveals that a loop region of ALKBH5 is immobilized by a disulfide bond which apparently excludes the binding of dsDNA to ALKBH5. We identify the m6A binding pocket of ALKBH5 and the key residues involved in m6A recognition using mutagenesis and ITC binding experiments.
		+
		+	Structures of human ALKBH5 demethylase reveal a unique binding mode for specific single stranded m6A RNA demethylation.,Xu C, Liu K, Tempel W, Demetriades M, Aik W, Schofield CJ, Min J J Biol Chem. 2014 Apr 28. PMID:24778178<ref>PMID:24778178</ref>
		+
		+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:07, 7 May 2014

OCA — Wed, 07 May 2014 07:07:27 GMT

←Older revision		Revision as of 07:07, 7 May 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4o61\| PDB=4o61 \| SCENE= }}~~	+	==Structure of human ALKBH5 crystallized in the presence of citrate==
-	===Structure of human ALKBH5 crystallized in the presence of citrate===	+	<StructureSection load='4o61' size='340' side='right' caption='[[4o61]], [[Resolution\|resolution]] 1.90Å' scene=''>
-		+	== Structural highlights ==
-	==~~Function~~==	+	<table><tr><td colspan='2'>[[4o61]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O61 OCA]. <br>
-	[[http://~~www~~.~~uniprot~~.org/~~uniprot~~/~~ALKB5_HUMAN ALKB5_HUMAN~~]~~] Dioxygenase that demethylates RNA by oxidative demethylation~~: ~~specifically demethylates N(6)-methyladenosine (m(6)A) RNA, the most prevalent internal modification of messenger RNA (mRNA) in higher eukaryotes~~. ~~Requires molecular oxygen, alpha-ketoglutarate and iron~~. ~~Demethylation of m(6)A mRNA affects mRNA processing and export and is required for spermatogenesis~~.<~~ref~~>~~PMID~~:~~21264265~~</~~ref~~> <~~ref~~>~~PMID~~:~~23177736~~</~~ref~~>	+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene><br>
-		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ALKBH5, ABH5, OFOXD1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
-	==~~About this Structure~~==	+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </span></td></tr>
-	[[~~4o61~~]] ~~is a~~ 2 ~~chain structure~~. ~~Full crystallographic information is available from~~ [http://oca.weizmann.ac.il/oca-bin/~~ocashort~~?id=~~4O61~~ OCA].	+	<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=4o61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o61 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4o61 RCSB], [http://www.ebi.ac.uk/pdbsum/4o61 PDBsum]</span></td></tr>
-		+	<table>
-	==~~Reference~~==	+	== References ==
-	<references ~~group="xtra"~~/><~~references~~/>	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Human]]
	[[Category: Arrowsmith, C H.]]		[[Category: Arrowsmith, C H.]]
	[[Category: Bountra, C.]]		[[Category: Bountra, C.]]

OCA at 18:27, 3 March 2014

OCA — Mon, 03 Mar 2014 18:27:30 GMT

←Older revision		Revision as of 18:27, 3 March 2014
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{STRUCTURE_4o61\| PDB=4o61 \| SCENE= }}
		+	===Structure of human ALKBH5 crystallized in the presence of citrate===

-	~~The entry 4o61~~ is ~~ON HOLD~~ ~~until Feb 22 2015~~	+	==Function==
		+	[[http://www.uniprot.org/uniprot/ALKB5_HUMAN ALKB5_HUMAN]] Dioxygenase that demethylates RNA by oxidative demethylation: specifically demethylates N(6)-methyladenosine (m(6)A) RNA, the most prevalent internal modification of messenger RNA (mRNA) in higher eukaryotes. Requires molecular oxygen, alpha-ketoglutarate and iron. Demethylation of m(6)A mRNA affects mRNA processing and export and is required for spermatogenesis.<ref>PMID:21264265</ref> <ref>PMID:23177736</ref>

-	~~Authors~~: ~~Tempel, W., Chao, X., Liu, K., Dong, A., Cerovina, T., He, H., Bountra, C., Arrowsmith, C.H~~.~~, Edwards, A~~.M.~~, Min, J~~.~~, Structural Genomics Consortium (SGC)~~	+	==About this Structure==
		+	[[4o61]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O61 OCA].

-	~~Description~~: ~~Structure of human ALKBH5 crystallized in the presence of citrate~~	+	==Reference==
		+	<references group="xtra"/><references/>
		+	[[Category: Arrowsmith, C H.]]
		+	[[Category: Bountra, C.]]
		+	[[Category: Cerovina, T.]]
		+	[[Category: Chao, X.]]
		+	[[Category: Dong, A.]]
		+	[[Category: Edwards, A M.]]
		+	[[Category: He, H.]]
		+	[[Category: Liu, K.]]
		+	[[Category: Min, J.]]
		+	[[Category: SGC, Structural Genomics Consortium.]]
		+	[[Category: Tempel, W.]]
		+	[[Category: Dioxygenase]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Rna demethylase]]
		+	[[Category: Sgc]]
		+	[[Category: Structural genomics consortium]]

OCA at 06:46, 22 January 2014

OCA — Wed, 22 Jan 2014 06:46:08 GMT

←Older revision		Revision as of 06:46, 22 January 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4o61 is ON HOLD	+	The entry 4o61 is ON HOLD until Feb 22 2015

	Authors: Tempel, W., Chao, X., Liu, K., Dong, A., Cerovina, T., He, H., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Min, J., Structural Genomics Consortium (SGC)		Authors: Tempel, W., Chao, X., Liu, K., Dong, A., Cerovina, T., He, H., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Min, J., Structural Genomics Consortium (SGC)

	Description: Structure of human ALKBH5 crystallized in the presence of citrate		Description: Structure of human ALKBH5 crystallized in the presence of citrate

OCA: Protected "4o61" [edit=sysop:move=sysop]

OCA — Wed, 08 Jan 2014 09:23:51 GMT

Protected "4o61" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:23, 8 January 2014