4npl

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==Crystal structure of Zebrafish ALKBH5 in complex with alpha-ketoglutarate==
==Crystal structure of Zebrafish ALKBH5 in complex with alpha-ketoglutarate==
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<StructureSection load='4npl' size='340' side='right' caption='[[4npl]], [[Resolution|resolution]] 1.65&Aring;' scene=''>
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<StructureSection load='4npl' size='340' side='right'caption='[[4npl]], [[Resolution|resolution]] 1.65&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[4npl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Brachidanio_rerio Brachidanio rerio]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NPL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4NPL FirstGlance]. <br>
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<table><tr><td colspan='2'>[[4npl]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Danio_rerio Danio rerio]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NPL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4NPL 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=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.651&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4npm|4npm]]</td></tr>
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<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=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">alkbh5 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7955 Brachidanio rerio])</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4npl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4npl OCA], [https://pdbe.org/4npl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4npl RCSB], [https://www.ebi.ac.uk/pdbsum/4npl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4npl ProSAT]</span></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=4npl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4npl OCA], [http://pdbe.org/4npl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4npl RCSB], [http://www.ebi.ac.uk/pdbsum/4npl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4npl ProSAT]</span></td></tr>
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</table>
</table>
== Function ==
== Function ==
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[[http://www.uniprot.org/uniprot/ALKB5_DANRE ALKB5_DANRE]] Dioxygenase that demethylates RNA by oxidative demethylation: specifically demethylates N(6)-methyladenosine (m(6)A) RNA, the most prevalent internal modification of messenger RNA (mRNA) in higher eukaryotes. Requires molecular oxygen, alpha-ketoglutarate and iron (By similarity).
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[https://www.uniprot.org/uniprot/ALKB5_DANRE ALKB5_DANRE] Dioxygenase that demethylates RNA by oxidative demethylation: specifically demethylates N(6)-methyladenosine (m(6)A) RNA, the most prevalent internal modification of messenger RNA (mRNA) in higher eukaryotes. Requires molecular oxygen, alpha-ketoglutarate and iron (By similarity).
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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ALKBH5, a member of AlkB family proteins, has been reported as a mammalian N(6)-methyladenosine (m(6)A) RNA demethylase. Here we report the crystal structure of zebrafish ALKBH5 (fALKBH5) with the resolution of 1.65A. Structural superimposition shows that fALKBH5 is comprised of a conserved jelly-roll motif. However, it possesses a loop that interferes potential binding of a duplex nucleic acid substrate, suggesting an important role in substrate selection. In addition, several active site residues are different between the two known m(6)A RNA demethylases, ALKBH5 and FTO, which may result in their slightly different pathways of m(6)A demethylation.
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Crystal structure of the RNA demethylase ALKBH5 from zebrafish.,Chen W, Zhang L, Zheng G, Fu Y, Ji Q, Liu F, Chen H, He C FEBS Lett. 2014 Mar 18;588(6):892-8. doi: 10.1016/j.febslet.2014.02.021. Epub, 2014 Feb 20. PMID:24561204<ref>PMID:24561204</ref>
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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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<div class="pdbe-citations 4npl" style="background-color:#fffaf0;"></div>
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==See Also==
==See Also==
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*[[Dioxygenase|Dioxygenase]]
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*[[Dioxygenase 3D structures|Dioxygenase 3D structures]]
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Brachidanio rerio]]
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[[Category: Danio rerio]]
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[[Category: Chen, W]]
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[[Category: Large Structures]]
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[[Category: He, C]]
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[[Category: Chen W]]
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[[Category: Zhang, L]]
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[[Category: He C]]
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[[Category: Oxidoreductase]]
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[[Category: Zhang L]]

Current revision

Crystal structure of Zebrafish ALKBH5 in complex with alpha-ketoglutarate

PDB ID 4npl

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