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2fd8

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{{Seed}}
 
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[[Image:2fd8.png|left|200px]]
 
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==Crystal Structure of AlkB in complex with Fe(II), 2-oxoglutarate, and methylated trinucleotide T-meA-T==
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The line below this paragraph, containing "STRUCTURE_2fd8", creates the "Structure Box" on the page.
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<StructureSection load='2fd8' size='340' side='right'caption='[[2fd8]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2fd8]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FD8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FD8 FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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]] 2.3&#8491;</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=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=MA7:1N-METHYLADENOSINE-5-MONOPHOSPHATE'>MA7</scene></td></tr>
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{{STRUCTURE_2fd8| PDB=2fd8 | SCENE= }}
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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=2fd8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fd8 OCA], [https://pdbe.org/2fd8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fd8 RCSB], [https://www.ebi.ac.uk/pdbsum/2fd8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fd8 ProSAT], [https://www.topsan.org/Proteins/NESGC/2fd8 TOPSAN]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/ALKB_ECOLI ALKB_ECOLI] Dioxygenase that repairs alkylated DNA and RNA containing 3-methylcytosine or 1-methyladenine by oxidative demethylation. Has highest activity towards 3-methylcytosine. Has lower activity towards alkylated DNA containing ethenoadenine, and no detectable activity towards 1-methylguanine or 3-methylthymine. Accepts double-stranded and single-stranded substrates. Requires molecular oxygen, alpha-ketoglutarate and iron. Provides extensive resistance to alkylating agents such as MMS and DMS (SN2 agents), but not to MMNG and MNU (SN1 agents).<ref>PMID:12226668</ref> <ref>PMID:12594517</ref> <ref>PMID:16482161</ref> <ref>PMID:19706517</ref> <ref>PMID:21068844</ref> <ref>PMID:20084272</ref>
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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/fd/2fd8_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/main_output.php?pdb_ID=2fd8 ConSurf].
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<div style="clear:both"></div>
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===Crystal Structure of AlkB in complex with Fe(II), 2-oxoglutarate, and methylated trinucleotide T-meA-T===
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==See Also==
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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__
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(as it appears on PubMed at http://www.pubmed.gov), where 16482161 is the PubMed ID number.
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</StructureSection>
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[[Category: Escherichia coli K-12]]
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{{ABSTRACT_PUBMED_16482161}}
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[[Category: Large Structures]]
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[[Category: Benach J]]
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==About this Structure==
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[[Category: Edstrom WC]]
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2FD8 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FD8 OCA].
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[[Category: Gibney BR]]
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[[Category: Hunt JF]]
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==Reference==
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[[Category: Yu B]]
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Crystal structures of catalytic complexes of the oxidative DNA/RNA repair enzyme AlkB., Yu B, Edstrom WC, Benach J, Hamuro Y, Weber PC, Gibney BR, Hunt JF, Nature. 2006 Feb 16;439(7078):879-84. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16482161 16482161]
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[[Category: Escherichia coli]]
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[[Category: Single protein]]
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[[Category: Benach, J.]]
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[[Category: Edstrom, W C.]]
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[[Category: Gibney, B R.]]
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[[Category: Hunt, J F.]]
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[[Category: NESG, Northeast Structural Genomics Consortium.]]
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[[Category: Yu, B.]]
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[[Category: Beta jellyroll]]
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[[Category: Nesg]]
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[[Category: Northeast structural genomics consortium]]
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[[Category: Protein structure initiative]]
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[[Category: Psi]]
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[[Category: Structural genomic]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 14:46:13 2008''
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Current revision

Crystal Structure of AlkB in complex with Fe(II), 2-oxoglutarate, and methylated trinucleotide T-meA-T

PDB ID 2fd8

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