OCA at 06:02, 4 April 2018

OCA — Wed, 04 Apr 2018 06:02:54 GMT

←Older revision		Revision as of 06:02, 4 April 2018
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-	'''Unreleased structure'''

-	~~The entry~~ 6f4s is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Human JMJD5 (N308C) in complex with Mn(II), 2OG and RCCD1 (139-143) (complex-4)==
		+	<StructureSection load='6f4s' size='340' side='right' caption='[[6f4s]], [[Resolution\|resolution]] 1.46Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6f4s]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6F4S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6F4S FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6f4m\|6f4m]], [[6f4n\|6f4n]], [[6f4o\|6f4o]], [[6f4p\|6f4p]], [[6f4q\|6f4q]], [[6f4r\|6f4r]], [[6f4t\|6f4t]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/50S_ribosomal_protein_L16_3-hydroxylase 50S ribosomal protein L16 3-hydroxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.11.47 1.14.11.47] </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=6f4s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6f4s OCA], [http://pdbe.org/6f4s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6f4s RCSB], [http://www.ebi.ac.uk/pdbsum/6f4s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6f4s ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/KDM8_HUMAN KDM8_HUMAN]] Histone demethylase required for G2/M phase cell cycle progression. Specifically demethylates dimethylated 'Lys-36' (H3K36me2) of histone H3, an epigenetic repressive mark, thereby acting as a transcription activator. Regulates expression of CCNA1 (cyclin-A1), leading to regulate cancer cell proliferation. [[http://www.uniprot.org/uniprot/RCCD1_HUMAN RCCD1_HUMAN]] Acts as a coregulator of KDM8 to promote histone demethylase activity on di- and trimethylated 'Lys-36' (H3K36me2/me3) of histone H3 (PubMed:24981860). Plays a role in transcriptional repression of satellite repeats, possibly by regulating H3K36 methylation levels in centromeric regions together with KDM8 (PubMed:24981860). Possibly together with KDM8, involved in proper mitotic spindle organization and chromosome segregation (PubMed:24981860). Plays a role in regulating alpha-tubulin deacetylation and cytoskeletal microtubule stability and thereby promoting cell migration and TGF-beta-induced epithelial to mesenchymal transition (EMT), potentially through the inhibition of KDM8 (PubMed:28455245).<ref>PMID:24981860</ref> <ref>PMID:28455245</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Oxygenase-catalysed post-translational modifications of basic protein residues, including lysyl hydroxylations and N(epsilon)-methyl lysyl demethylations, have important cellular roles. Jumonji-C (JmjC) domain-containing protein 5 (JMJD5), which genetic studies reveal is essential in animal development, is reported as a histone N(epsilon)-methyl lysine demethylase (KDM). Here we report how extensive screening with peptides based on JMJD5 interacting proteins led to the finding that JMJD5 catalyses stereoselective C-3 hydroxylation of arginine residues in sequences from human regulator of chromosome condensation domain-containing protein 1 (RCCD1) and ribosomal protein S6 (RPS6). High-resolution crystallographic analyses reveal overall fold, active site and substrate binding/product release features supporting the assignment of JMJD5 as an arginine hydroxylase rather than a KDM. The results will be useful in the development of selective oxygenase inhibitors for the treatment of cancer and genetic diseases.

-	~~Authors~~:	+	JMJD5 is a human arginyl C-3 hydroxylase.,Wilkins SE, Islam S, Gannon JM, Markolovic S, Hopkinson RJ, Ge W, Schofield CJ, Chowdhury R Nat Commun. 2018 Mar 21;9(1):1180. doi: 10.1038/s41467-018-03410-w. PMID:29563586<ref>PMID:29563586</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 6f4s" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: 50S ribosomal protein L16 3-hydroxylase]]
		+	[[Category: Chowdhury, R]]
		+	[[Category: Islam, M S]]
		+	[[Category: Schofield, C J]]
		+	[[Category: 2-oxoglutarate]]
		+	[[Category: 40s ribosomal protein s6]]
		+	[[Category: Arginine hydroxylation]]
		+	[[Category: Arginyl c-3 hydroxylase]]
		+	[[Category: Beta-hydroxylation]]
		+	[[Category: Cancer]]
		+	[[Category: Cell structure]]
		+	[[Category: Cytoplasm]]
		+	[[Category: Development]]
		+	[[Category: Dioxygenase]]
		+	[[Category: Dna-binding]]
		+	[[Category: Dsbh]]
		+	[[Category: Epigenetic regulation]]
		+	[[Category: Facial triad]]
		+	[[Category: Hydroxylation]]
		+	[[Category: Hypoxia]]
		+	[[Category: Iron]]
		+	[[Category: Jmjc]]
		+	[[Category: Jmjc demethylase]]
		+	[[Category: Jmjc domain]]
		+	[[Category: Jmjc domain-containing protein 5]]
		+	[[Category: Jmjc hydroxylase]]
		+	[[Category: Jmjd5]]
		+	[[Category: Kdm]]
		+	[[Category: Kdm8]]
		+	[[Category: Lysine-specific demethylase 8]]
		+	[[Category: Metal-binding]]
		+	[[Category: Non-heme]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Oxygenase]]
		+	[[Category: Phosphorylation]]
		+	[[Category: Polymorphism]]
		+	[[Category: Post-translational modification]]
		+	[[Category: Ptm]]
		+	[[Category: Rcc1 domain-containing protein 1]]
		+	[[Category: Rccd1]]
		+	[[Category: Regulator of chromosome condensation]]
		+	[[Category: Ribosome biogenesis]]
		+	[[Category: Rps6]]
		+	[[Category: Signaling]]
		+	[[Category: Transcription]]
		+	[[Category: Transcription activator/inhibitor]]
		+	[[Category: Translation]]

OCA at 05:24, 28 March 2018

OCA — Wed, 28 Mar 2018 05:24:01 GMT

←Older revision		Revision as of 05:24, 28 March 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6f4s is ON HOLD	+	The entry 6f4s is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6f4s" [edit=sysop:move=sysop]

OCA — Wed, 06 Dec 2017 06:17:52 GMT

Protected "6f4s" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:17, 6 December 2017

OCA: New page: '''Unreleased structure''' The entry 6f4s is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 06 Dec 2017 06:17:51 GMT

New page: '''Unreleased structure''' The entry 6f4s is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6f4s is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

6f4s - Revision history

OCA at 06:02, 4 April 2018

OCA at 05:24, 28 March 2018

OCA: Protected "6f4s" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 6f4s is ON HOLD Authors: Description: Category: Unreleased Structures