2q8c
From Proteopedia
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|PDB= 2q8c |SIZE=350|CAPTION= <scene name='initialview01'>2q8c</scene>, resolution 2.047Å | |PDB= 2q8c |SIZE=350|CAPTION= <scene name='initialview01'>2q8c</scene>, resolution 2.047Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=AKG:2-OXYGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=M3L:N-TRIMETHYLLYSINE'>M3L</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= JMJD2A, JHDM3A, JMJD2, KIAA0677 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens]) | |GENE= JMJD2A, JHDM3A, JMJD2, KIAA0677 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens]) | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[2q8d|2Q8D]], [[2q8e|2Q8E]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2q8c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2q8c OCA], [http://www.ebi.ac.uk/pdbsum/2q8c PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2q8c RCSB]</span> | ||
}} | }} | ||
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[[Category: Ortiz-Tello, P.]] | [[Category: Ortiz-Tello, P.]] | ||
[[Category: Trievel, R C.]] | [[Category: Trievel, R C.]] | ||
| - | [[Category: AKG]] | ||
| - | [[Category: NI]] | ||
| - | [[Category: ZN]] | ||
[[Category: histone demethylase]] | [[Category: histone demethylase]] | ||
[[Category: hydroxylase]] | [[Category: hydroxylase]] | ||
[[Category: jumonji]] | [[Category: jumonji]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 04:46:09 2008'' |
Revision as of 01:46, 31 March 2008
| |||||||
| , resolution 2.047Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , | ||||||
| Gene: | JMJD2A, JHDM3A, JMJD2, KIAA0677 (Homo sapiens) | ||||||
| Related: | 2Q8D, 2Q8E
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal structure of JMJD2A in ternary complex with an histone H3K9me3 peptide and 2-oxoglutarate
Overview
JMJD2A is a JmjC histone demethylase (HDM) that catalyzes the demethylation of di- and trimethylated Lys9 and Lys36 in histone H3 (H3K9me2/3 and H3K36me2/3). Here we present the crystal structures of the JMJD2A catalytic domain in complex with H3K9me3, H3K36me2 and H3K36me3 peptides. The structures reveal that histone substrates are recognized through a network of backbone hydrogen bonds and hydrophobic interactions that deposit the trimethyllysine into the active site. The trimethylated epsilon-ammonium cation is coordinated within a methylammonium-binding pocket through carbon-oxygen (CH...O) hydrogen bonds that position one of the zeta-methyl groups adjacent to the Fe(II) center for hydroxylation and demethylation. Mutations of the residues comprising this pocket abrogate demethylation by JMJD2A, with the exception of an S288A substitution, which augments activity, particularly toward H3K9me2. We propose that this residue modulates the methylation-state specificities of JMJD2 enzymes and other trimethyllysine-specific JmjC HDMs.
About this Structure
2Q8C is a Single protein structure of sequence from Homo sapiens. Full crystallographic information is available from OCA.
Reference
Specificity and mechanism of JMJD2A, a trimethyllysine-specific histone demethylase., Couture JF, Collazo E, Ortiz-Tello PA, Brunzelle JS, Trievel RC, Nat Struct Mol Biol. 2007 Aug;14(8):689-95. Epub 2007 Jun 24. PMID:17589523
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