3ld8

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[[Image:3ld8.png|left|200px]]
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==Structure of JMJD6 and Fab Fragments==
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<StructureSection load='3ld8' size='340' side='right' caption='[[3ld8]], [[Resolution|resolution]] 2.70&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[3ld8]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Cricetulus_migratorius Cricetulus migratorius] and [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LD8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LD8 FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3ldb|3ldb]]</td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">JMJD6, JMJD6(1-403), KIAA0585, PTDSR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>
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<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=3ld8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ld8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ld8 RCSB], [http://www.ebi.ac.uk/pdbsum/3ld8 PDBsum]</span></td></tr>
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</table>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ld/3ld8_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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JMJD6 is a Jumonji C domain-containing hydroxylase. JMJD6 binds alpha-ketoglutarate and iron and has been characterized as either a histone arginine demethylase or U2AF65 lysyl hydroxylase. Here, we describe the structures of JMJD6 with and without alpha-ketoglutarate, which revealed a novel substrate binding groove and two positively charged surfaces. The structures also contain a stack of aromatic residues located near the active center. The side chain of one residue within this stack assumed different conformations in the two structures. Interestingly, JMJD6 bound efficiently to single-stranded RNA, but not to single-stranded DNA, double-stranded RNA, or double-stranded DNA. These structural features and truncation analysis of JMJD6 suggest that JMJD6 may bind and modify single-stand RNA rather than the previously reported peptide substrates.
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{{STRUCTURE_3ld8| PDB=3ld8 | SCENE= }}
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Interaction of JMJD6 with single-stranded RNA.,Hong X, Zang J, White J, Wang C, Pan CH, Zhao R, Murphy RC, Dai S, Henson P, Kappler JW, Hagman J, Zhang G Proc Natl Acad Sci U S A. 2010 Aug 17;107(33):14568-72. Epub 2010 Aug 2. PMID:20679243<ref>PMID:20679243</ref>
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===Structure of JMJD6 and Fab Fragments===
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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{{ABSTRACT_PUBMED_20679243}}
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==About this Structure==
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[[3ld8]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Cricetulus_migratorius Cricetulus migratorius] and [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LD8 OCA].
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==See Also==
==See Also==
*[[Antibody|Antibody]]
*[[Antibody|Antibody]]
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== References ==
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==Reference==
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<references/>
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<ref group="xtra">PMID:020679243</ref><references group="xtra"/>
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__TOC__
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</StructureSection>
[[Category: Cricetulus migratorius]]
[[Category: Cricetulus migratorius]]
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
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[[Category: Hong, X.]]
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[[Category: Hong, X]]
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[[Category: Kappler, J W.]]
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[[Category: Kappler, J W]]
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[[Category: Wang, C.]]
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[[Category: Wang, C]]
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[[Category: White, J.]]
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[[Category: White, J]]
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[[Category: Zang, J.]]
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[[Category: Zang, J]]
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[[Category: Zhang, G.]]
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[[Category: Zhang, G]]
[[Category: Fab fragment]]
[[Category: Fab fragment]]
[[Category: Immune system]]
[[Category: Immune system]]
[[Category: Jmjd6]]
[[Category: Jmjd6]]

Revision as of 09:51, 9 December 2014

Structure of JMJD6 and Fab Fragments

3ld8, resolution 2.70Å

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