2jhn

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[[Image:2jhn.gif|left|200px]]<br />
 
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<applet load="2jhn" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="2jhn, resolution 1.80&Aring;" />
 
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'''3-METHYLADENINE DNA-GLYCOSYLASE FROM ARCHAEOGLOBUS FULGIDUS'''<br />
 
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==Overview==
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==3-methyladenine dna-glycosylase from Archaeoglobus fulgidus==
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N(1)-methyladenine (m(1)A) and N(3)-methylcytosine (m(3)C) are major toxic, and mutagenic lesions induced by alkylation in single-stranded DNA. In, bacteria and mammals, m(1)A and m(3)C were recently shown to be repaired, by AlkB-mediated oxidative demethylation, a direct DNA damage reversal, mechanism. No AlkB gene homologues have been identified in Archaea. We, report that m(1)A and m(3)C are repaired by the AfAlkA base excision, repair glycosylase of Archaeoglobus fulgidus, suggesting a different, repair mechanism for these lesions in the third domain of life. In, addition, AfAlkA was found to effect a robust excision of, 1,N(6)-ethenoadenine. We present a high-resolution crystal structure of, AfAlkA, which, together with the characterization of several site-directed, mutants, forms a molecular rationalization for the newly discovered base, excision activity.
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<StructureSection load='2jhn' size='340' side='right'caption='[[2jhn]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2jhn]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JHN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JHN FirstGlance]. <br>
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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]] 1.8&#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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene>, <scene name='pdbligand=MBO:MERCURIBENZOIC+ACID'>MBO</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></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=2jhn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jhn OCA], [https://pdbe.org/2jhn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2jhn RCSB], [https://www.ebi.ac.uk/pdbsum/2jhn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2jhn ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/O28163_ARCFU O28163_ARCFU]
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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/jh/2jhn_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=2jhn 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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N(1)-methyladenine (m(1)A) and N(3)-methylcytosine (m(3)C) are major toxic and mutagenic lesions induced by alkylation in single-stranded DNA. In bacteria and mammals, m(1)A and m(3)C were recently shown to be repaired by AlkB-mediated oxidative demethylation, a direct DNA damage reversal mechanism. No AlkB gene homologues have been identified in Archaea. We report that m(1)A and m(3)C are repaired by the AfAlkA base excision repair glycosylase of Archaeoglobus fulgidus, suggesting a different repair mechanism for these lesions in the third domain of life. In addition, AfAlkA was found to effect a robust excision of 1,N(6)-ethenoadenine. We present a high-resolution crystal structure of AfAlkA, which, together with the characterization of several site-directed mutants, forms a molecular rationalization for the newly discovered base excision activity.
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==About this Structure==
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Structural basis for enzymatic excision of N1-methyladenine and N3-methylcytosine from DNA.,Leiros I, Nabong MP, Grosvik K, Ringvoll J, Haugland GT, Uldal L, Reite K, Olsbu IK, Knaevelsrud I, Moe E, Andersen OA, Birkeland NK, Ruoff P, Klungland A, Bjelland S EMBO J. 2007 Apr 18;26(8):2206-17. Epub 2007 Mar 29. PMID:17396151<ref>PMID:17396151</ref>
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2JHN is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus] with HG, NA, MBO, MES and GOL as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/DNA-3-methyladenine_glycosylase_II DNA-3-methyladenine glycosylase II], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.21 3.2.2.21] Structure known Active Site: AC1. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2JHN OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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Structural basis for enzymatic excision of N1-methyladenine and N3-methylcytosine from DNA., Leiros I, Nabong MP, Grosvik K, Ringvoll J, Haugland GT, Uldal L, Reite K, Olsbu IK, Knaevelsrud I, Moe E, Andersen OA, Birkeland NK, Ruoff P, Klungland A, Bjelland S, EMBO J. 2007 Apr 18;26(8):2206-17. Epub 2007 Mar 29. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17396151 17396151]
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</div>
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[[Category: Archaeoglobus fulgidus]]
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<div class="pdbe-citations 2jhn" style="background-color:#fffaf0;"></div>
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[[Category: DNA-3-methyladenine glycosylase II]]
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[[Category: Single protein]]
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[[Category: Andersen, O.A.]]
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[[Category: Birkeland, N.K.]]
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[[Category: Bjelland, S.]]
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[[Category: Grosvik, K.]]
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[[Category: Haugland, G.T.]]
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[[Category: Klungland, A.]]
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[[Category: Knaevelsrud, I.]]
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[[Category: Leiros, I.]]
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[[Category: Moe, E.]]
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[[Category: Nabong, M.P.]]
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[[Category: Olsbu, I.K.]]
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[[Category: Reite, K.]]
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[[Category: Ringvoll, J.]]
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[[Category: Ruoff, P.]]
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[[Category: Uldal, L.]]
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[[Category: GOL]]
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[[Category: HG]]
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[[Category: MBO]]
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[[Category: MES]]
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[[Category: NA]]
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[[Category: alka]]
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[[Category: archaeoglobus fulgidus]]
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[[Category: dna repair]]
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[[Category: hydrolase]]
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[[Category: hyperthermophiles]]
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[[Category: n1-methyladenine]]
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[[Category: n3-methylcytosine]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov 5 18:35:30 2007''
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==See Also==
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*[[DNA glycosylase 3D structures|DNA glycosylase 3D structures]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Archaeoglobus fulgidus]]
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[[Category: Large Structures]]
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[[Category: Andersen OA]]
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[[Category: Birkeland NK]]
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[[Category: Bjelland S]]
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[[Category: Grosvik K]]
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[[Category: Haugland GT]]
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[[Category: Klungland A]]
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[[Category: Knaevelsrud I]]
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[[Category: Leiros I]]
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[[Category: Moe E]]
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[[Category: Nabong MP]]
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[[Category: Olsbu IK]]
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[[Category: Reite K]]
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[[Category: Ringvoll J]]
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[[Category: Ruoff P]]
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[[Category: Uldal L]]

Current revision

3-methyladenine dna-glycosylase from Archaeoglobus fulgidus

PDB ID 2jhn

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