5fwj: Difference between revisions

Revision as of 11:27, 12 May 2016

Crystal structure of human JARID1C in complex with KDM5-C49

Structural highlights

5fwj is a 2 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	MG, MMK, MN, ZN
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum

Disease

[KDM5C_HUMAN] Syndromic X-linked intellectual disability due to JARID1C mutation. The disease is caused by mutations affecting the gene represented in this entry.

Function

[KDM5C_HUMAN] Histone demethylase that specifically demethylates 'Lys-4' of histone H3, thereby playing a central role in histone code. Does not demethylate histone H3 'Lys-9', H3 'Lys-27', H3 'Lys-36', H3 'Lys-79' or H4 'Lys-20'. Demethylates trimethylated and dimethylated but not monomethylated H3 'Lys-4'. Participates in transcriptional repression of neuronal genes by recruiting histone deacetylases and REST at neuron-restrictive silencer elements. Represses the CLOCK-ARNTL/BMAL1 heterodimer-mediated transcriptional activation of the core clock component PER2 (By similarity).[UniProtKB:P41230]^[1] ^[2] ^[3]

References

↑ Iwase S, Lan F, Bayliss P, de la Torre-Ubieta L, Huarte M, Qi HH, Whetstine JR, Bonni A, Roberts TM, Shi Y. The X-linked mental retardation gene SMCX/JARID1C defines a family of histone H3 lysine 4 demethylases. Cell. 2007 Mar 23;128(6):1077-88. Epub 2007 Feb 22. PMID:17320160 doi:10.1016/j.cell.2007.02.017
↑ Christensen J, Agger K, Cloos PA, Pasini D, Rose S, Sennels L, Rappsilber J, Hansen KH, Salcini AE, Helin K. RBP2 belongs to a family of demethylases, specific for tri-and dimethylated lysine 4 on histone 3. Cell. 2007 Mar 23;128(6):1063-76. Epub 2007 Feb 22. PMID:17320161 doi:S0092-8674(07)00182-1
↑ Tahiliani M, Mei P, Fang R, Leonor T, Rutenberg M, Shimizu F, Li J, Rao A, Shi Y. The histone H3K4 demethylase SMCX links REST target genes to X-linked mental retardation. Nature. 2007 May 31;447(7144):601-5. Epub 2007 Apr 29. PMID:17468742 doi:nature05823

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OCA

[1] Iwase S, Lan F, Bayliss P, de la Torre-Ubieta L, Huarte M, Qi HH, Whetstine JR, Bonni A, Roberts TM, Shi Y. The X-linked mental retardation gene SMCX/JARID1C defines a family of histone H3 lysine 4 demethylases. Cell. 2007 Mar 23;128(6):1077-88. Epub 2007 Feb 22. PMID:17320160 doi:10.1016/j.cell.2007.02.017

[2] Christensen J, Agger K, Cloos PA, Pasini D, Rose S, Sennels L, Rappsilber J, Hansen KH, Salcini AE, Helin K. RBP2 belongs to a family of demethylases, specific for tri-and dimethylated lysine 4 on histone 3. Cell. 2007 Mar 23;128(6):1063-76. Epub 2007 Feb 22. PMID:17320161 doi:S0092-8674(07)00182-1

[3] Tahiliani M, Mei P, Fang R, Leonor T, Rutenberg M, Shimizu F, Li J, Rao A, Shi Y. The histone H3K4 demethylase SMCX links REST target genes to X-linked mental retardation. Nature. 2007 May 31;447(7144):601-5. Epub 2007 Apr 29. PMID:17468742 doi:nature05823

[1]

[2]

[3]

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 5fwj is ON HOLD
+==Crystal structure of human JARID1C in complex with KDM5-C49==
+<StructureSection load='5fwj' size='340' side='right' caption='[[5fwj]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
-Authors: SRIKANNATHASAN, V., SZYKOWSKA, A., STRAIN-DAMERELL, C., KOPEC, J., NOWAK, R., GILEADI, C., JOHANSSON, C., KUPINSKA, K., BURGESS-BROWN, N.A., Shrestha, L., Dong, W., VonDELFT, F., ARROWSMITH, C.H., BOUNTRA, C., EDWARDS, A., HUBER, K., OPPERMANN, U.
+== Structural highlights ==
+<table><tr><td colspan='2'>[[5fwj]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FWJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5FWJ FirstGlance]. <br>
-Description: Crystal structure of human JARID1C in complex with KDM5-C49
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MMK:2-{[(2-{[(E)-2-(DIMETHYLAMINO)ETHENYL](ETHYL)AMINO}-2-OXOETHYL)AMINO]METHYL}PYRIDINE-4-CARBOXYLIC+ACID'>MMK</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-[[Category: Unreleased Structures]]
+<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=5fwj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fwj OCA], [http://pdbe.org/5fwj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fwj RCSB], [http://www.ebi.ac.uk/pdbsum/5fwj PDBsum]</span></td></tr>
-[[Category: Nowak, R]]
+</table>
-[[Category: Vondelft, F]]
+== Disease ==
-[[Category: Burgess-Brown, N.A]]
+[[http://www.uniprot.org/uniprot/KDM5C_HUMAN KDM5C_HUMAN]] Syndromic X-linked intellectual disability due to JARID1C mutation. The disease is caused by mutations affecting the gene represented in this entry.
+== Function ==
+[[http://www.uniprot.org/uniprot/KDM5C_HUMAN KDM5C_HUMAN]] Histone demethylase that specifically demethylates 'Lys-4' of histone H3, thereby playing a central role in histone code. Does not demethylate histone H3 'Lys-9', H3 'Lys-27', H3 'Lys-36', H3 'Lys-79' or H4 'Lys-20'. Demethylates trimethylated and dimethylated but not monomethylated H3 'Lys-4'. Participates in transcriptional repression of neuronal genes by recruiting histone deacetylases and REST at neuron-restrictive silencer elements. Represses the CLOCK-ARNTL/BMAL1 heterodimer-mediated transcriptional activation of the core clock component PER2 (By similarity).[UniProtKB:P41230]<ref>PMID:17320160</ref> <ref>PMID:17320161</ref> <ref>PMID:17468742</ref>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Arrowsmith, C H]]
 [[Category: Bountra, C]]
+[[Category: Burgess-Brown, N A]]
+[[Category: Dong, W]]
+[[Category: Edwards, A]]
+[[Category: Gileadi, C]]
+[[Category: Huber, K]]
+[[Category: Johansson, C]]
+[[Category: Kopec, J]]
 [[Category: Kupinska, K]]
-[[Category: Huber, K]]
+[[Category: Nowak, R]]
-[[Category: Arrowsmith, C.H]]
+[[Category: Oppermann, U]]
 [[Category: Shrestha, L]]
-[[Category: Gileadi, C]]
+[[Category: Srikannathasan, V]]
-[[Category: Oppermann, U]]
+[[Category: Strain-Damerell, C]]
 [[Category: Szykowska, A]]
-[[Category: Kopec, J]]
+[[Category: VonDELFT, F]]
-[[Category: Johansson, C]]
+[[Category: Lysine-specific]]
-[[Category: Edwards, A]]
+[[Category: Lysine-specific demethylase 5c]]
-[[Category: Strain-Damerell, C]]
+[[Category: Oxidoreductase]]
-[[Category: Dong, W]]
-[[Category: Srikannathasan, V]]

5fwj: Difference between revisions

Revision as of 11:27, 12 May 2016

Crystal structure of human JARID1C in complex with KDM5-C49

Structural highlights

Disease

Function

References

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