7yxg - Revision history

OCA at 13:27, 1 February 2024

OCA — Thu, 01 Feb 2024 13:27:07 GMT

←Older revision		Revision as of 13:27, 1 February 2024
Line 3:		Line 3:
	<StructureSection load='7yxg' size='340' side='right'caption='[[7yxg]], [[Resolution\|resolution]] 1.64Å' scene=''>		<StructureSection load='7yxg' size='340' side='right'caption='[[7yxg]], [[Resolution\|resolution]] 1.64Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7yxg]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YXG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7YXG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7yxg]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YXG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7YXG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</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]] 1.641Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</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=7yxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yxg OCA], [https://pdbe.org/7yxg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7yxg RCSB], [https://www.ebi.ac.uk/pdbsum/7yxg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7yxg 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=7yxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yxg OCA], [https://pdbe.org/7yxg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7yxg RCSB], [https://www.ebi.ac.uk/pdbsum/7yxg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7yxg ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q9VU77_DROME Q9VU77_DROME]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Drosophila melanogaster]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chowdhury, R]]	+	[[Category: Chowdhury R]]
-	[[Category: Schofield~~, C J]]~~	+	[[Category: Schofield CJ]]
-	~~[[Category: 2-oxoglutarate]]~~	+
-	~~[[Category: Cancer]]~~	+
-	~~[[Category: Development]]~~	+
-	~~[[Category: Developmentally regulated gtp binding protein]]~~	+
-	~~[[Category: Dimerisation]]~~	+
-	~~[[Category: Dioxygenase]]~~	+
-	~~[[Category: Drg1]]~~	+
-	~~[[Category: Drg2]]~~	+
-	~~[[Category: Dsbh]]~~	+
-	~~[[Category: Facial triad]]~~	+
-	~~[[Category: Helix-loop-helix-beta]]~~	+
-	~~[[Category: Hydroxylation]]~~	+
-	~~[[Category: Hypoxia]]~~	+
-	~~[[Category: Iron]]~~	+
-	~~[[Category: Jmjc]]~~	+
-	~~[[Category: Jmjc demethylase]]~~	+
-	~~[[Category: Jmjc domain]]~~	+
-	~~[[Category: Jmjc domain-containing protein 7]]~~	+
-	~~[[Category: Jmjc hydroxylase]]~~	+
-	~~[[Category: Jmjd7]]~~	+
-	~~[[Category: Kdm]]~~	+
-	~~[[Category: Lysyl hydroxylation]]~~	+
-	~~[[Category: Metal-binding]]~~	+
-	~~[[Category: Non-heme]]~~	+
-	~~[[Category: Nucleic acid- binding]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Oxygenase]]~~	+
-	~~[[Category: Post-translational modification]]~~	+
-	~~[[Category: Ptm]]~~	+
-	~~[[Category: Ribosome biogenesis]]~~	+
-	~~[[Category: Trafac gtpase]]~~	+
-	~~[[Category: Translation]]~~	+
-	~~[[Category: Translation factor~~]]	+

OCA at 13:11, 4 May 2022

OCA — Wed, 04 May 2022 13:11:21 GMT

←Older revision		Revision as of 13:11, 4 May 2022
Line 1:		Line 1:

	==Drosophila melanogaster JMJD7 (dmJMJD7) in complex with Mn and 2OG==		==Drosophila melanogaster JMJD7 (dmJMJD7) in complex with Mn and 2OG==
-	<StructureSection load='7yxg' size='340' side='right'caption='[[7yxg]]' scene=''>	+	<StructureSection load='7yxg' size='340' side='right'caption='[[7yxg]], [[Resolution\|resolution]] 1.64Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YXG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7YXG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7yxg]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YXG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7YXG FirstGlance]. <br>
-	</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=7yxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yxg OCA], [https://pdbe.org/7yxg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7yxg RCSB], [https://www.ebi.ac.uk/pdbsum/7yxg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7yxg ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</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=7yxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yxg OCA], [https://pdbe.org/7yxg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7yxg RCSB], [https://www.ebi.ac.uk/pdbsum/7yxg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7yxg ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The JmjC family of 2-oxoglutarate dependent oxygenases catalyse a range of hydroxylation and demethylation reactions in humans and other animals. Jumonji domain-containing 7 (JMJD7) is a JmjC (3S)-lysyl-hydroxylase that catalyses the modification of Developmentally Regulated GTP Binding Proteins 1 and 2 (DRG1 and 2); JMJD7 has also been reported to have histone endopeptidase activity. Here we report biophysical and biochemical studies on JMJD7 from Drosophila melanogaster (dmJMJD7). Notably, crystallographic analyses reveal that the unusual dimerization mode of JMJD7, which involves interactions between both the N- and C-terminal regions of both dmJMJD7 monomers and disulfide formation, is conserved in human JMJD7 (hsJMJD7). The results further support the assignment of JMJD7 as a lysyl hydroxylase and will help enable the development of selective inhibitors for it and other JmjC oxygenases.
		+
		+	Conservation of the unusual dimeric JmjC fold of JMJD7 from Drosophila melanogaster to humans.,Chowdhury R, Abboud MI, Wiley J, Tumber A, Markolovic S, Schofield CJ Sci Rep. 2022 Apr 11;12(1):6065. doi: 10.1038/s41598-022-10028-y. PMID:35410347<ref>PMID:35410347</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7yxg" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chowdhury R]]	+	[[Category: Chowdhury, R]]
-	[[Category: Schofield CJ]]	+	[[Category: Schofield, C J]]
		+	[[Category: 2-oxoglutarate]]
		+	[[Category: Cancer]]
		+	[[Category: Development]]
		+	[[Category: Developmentally regulated gtp binding protein]]
		+	[[Category: Dimerisation]]
		+	[[Category: Dioxygenase]]
		+	[[Category: Drg1]]
		+	[[Category: Drg2]]
		+	[[Category: Dsbh]]
		+	[[Category: Facial triad]]
		+	[[Category: Helix-loop-helix-beta]]
		+	[[Category: Hydroxylation]]
		+	[[Category: Hypoxia]]
		+	[[Category: Iron]]
		+	[[Category: Jmjc]]
		+	[[Category: Jmjc demethylase]]
		+	[[Category: Jmjc domain]]
		+	[[Category: Jmjc domain-containing protein 7]]
		+	[[Category: Jmjc hydroxylase]]
		+	[[Category: Jmjd7]]
		+	[[Category: Kdm]]
		+	[[Category: Lysyl hydroxylation]]
		+	[[Category: Metal-binding]]
		+	[[Category: Non-heme]]
		+	[[Category: Nucleic acid- binding]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Oxygenase]]
		+	[[Category: Post-translational modification]]
		+	[[Category: Ptm]]
		+	[[Category: Ribosome biogenesis]]
		+	[[Category: Trafac gtpase]]
		+	[[Category: Translation]]
		+	[[Category: Translation factor]]

OCA at 11:41, 27 April 2022

OCA — Wed, 27 Apr 2022 11:41:18 GMT

←Older revision		Revision as of 11:41, 27 April 2022
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7yxg ~~is ON HOLD until Paper Publication~~	+	==Drosophila melanogaster JMJD7 (dmJMJD7) in complex with Mn and 2OG==
-		+	<StructureSection load='7yxg' size='340' side='right'caption='[[7yxg]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YXG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7YXG FirstGlance]. <br>
-	~~Description~~:	+	</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=7yxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yxg OCA], [https://pdbe.org/7yxg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7yxg RCSB], [https://www.ebi.ac.uk/pdbsum/7yxg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7yxg ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Chowdhury R]]
		+	[[Category: Schofield CJ]]

OCA at 10:05, 23 March 2022

OCA — Wed, 23 Mar 2022 10:05:07 GMT

←Older revision		Revision as of 10:05, 23 March 2022
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7yxg is ON HOLD	+	The entry 7yxg is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7yxg" [edit=sysop:move=sysop]

OCA — Wed, 23 Feb 2022 06:47:16 GMT

Protected "7yxg" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:47, 23 February 2022

OCA: New page: '''Unreleased structure''' The entry 7yxg is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 23 Feb 2022 06:47:15 GMT

New page: '''Unreleased structure''' The entry 7yxg is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7yxg is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]