1ee8

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(New page: 200px<br /><applet load="1ee8" size="450" color="white" frame="true" align="right" spinBox="true" caption="1ee8, resolution 1.9&Aring;" /> '''CRYSTAL STRUCTURE OF ...)
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[[Image:1ee8.gif|left|200px]]<br /><applet load="1ee8" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1ee8, resolution 1.9&Aring;" />
 
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'''CRYSTAL STRUCTURE OF MUTM (FPG) PROTEIN FROM THERMUS THERMOPHILUS HB8'''<br />
 
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==Overview==
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==CRYSTAL STRUCTURE OF MUTM (FPG) PROTEIN FROM THERMUS THERMOPHILUS HB8==
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The MutM [formamidopyrimidine DNA glycosylase (Fpg)] protein is a, trifunctional DNA base excision repair enzyme that removes a wide range of, oxidatively damaged bases (N-glycosylase activity) and cleaves both the, 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic, site (AP lyase activity). The crystal structure of MutM from an extreme, thermophile, Thermus thermophilus HB8, was determined at 1.9 A resolution, with multiwavelength anomalous diffraction phasing using the intrinsic, Zn(2+) ion of the zinc finger. MutM is composed of two distinct and novel, domains connected by a flexible hinge. There is a large, electrostatically, positive cleft lined by highly conserved residues between the domains. On, the basis of the three-dimensional structure and taking account of, previous biochemical experiments, we propose a DNA-binding mode and, reaction mechanism for MutM. The locations of the putative catalytic, residues and the two DNA-binding motifs (the zinc finger and the, helix-two-turns-helix motifs) suggest that the oxidized base is flipped, out from double-stranded DNA in the binding mode and excised by a, catalytic mechanism similar to that of bifunctional base excision repair, enzymes.
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<StructureSection load='1ee8' size='340' side='right'caption='[[1ee8]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1ee8]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EE8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1EE8 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]] 1.9&#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=ZN:ZINC+ION'>ZN</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=1ee8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ee8 OCA], [https://pdbe.org/1ee8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ee8 RCSB], [https://www.ebi.ac.uk/pdbsum/1ee8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ee8 ProSAT], [https://www.topsan.org/Proteins/RSGI/1ee8 TOPSAN]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/FPG_THET8 FPG_THET8] Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Acts as DNA glycosylase that recognizes and removes damaged bases. Has a preference for oxidized purines, such as 7,8-dihydro-8-oxoguanine (8-oxoG). Has AP (apurinic/apyrimidinic) lyase activity and introduces nicks in the DNA strand. Cleaves the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates (By similarity).
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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/ee/1ee8_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=1ee8 ConSurf].
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<div style="clear:both"></div>
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==About this Structure==
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==See Also==
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1EE8 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus] with ZN as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1EE8 OCA].
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*[[DNA glycosylase 3D structures|DNA glycosylase 3D structures]]
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__TOC__
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==Reference==
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</StructureSection>
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Crystal structure of a repair enzyme of oxidatively damaged DNA, MutM (Fpg), from an extreme thermophile, Thermus thermophilus HB8., Sugahara M, Mikawa T, Kumasaka T, Yamamoto M, Kato R, Fukuyama K, Inoue Y, Kuramitsu S, EMBO J. 2000 Aug 1;19(15):3857-69. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10921868 10921868]
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[[Category: Large Structures]]
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[[Category: Single protein]]
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[[Category: Thermus thermophilus HB8]]
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[[Category: Thermus thermophilus]]
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[[Category: Fukuyama K]]
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[[Category: Fukuyama, K.]]
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[[Category: Inoue Y]]
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[[Category: Inoue, Y.]]
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[[Category: Kato R]]
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[[Category: Kato, R.]]
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[[Category: Kumasaka T]]
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[[Category: Kumasaka, T.]]
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[[Category: Kuramitsu S]]
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[[Category: Kuramitsu, S.]]
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[[Category: Mikawa T]]
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[[Category: Mikawa, T.]]
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[[Category: Sugahara M]]
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[[Category: RSGI, RIKEN.Structural.Genomics/Proteomics.Initiative.]]
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[[Category: Yamamoto M]]
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[[Category: Sugahara, M.]]
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[[Category: Yamamoto, M.]]
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[[Category: ZN]]
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[[Category: beta sandwich]]
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[[Category: helix two-turns helix]]
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[[Category: riken structural genomics/proteomics initiative]]
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[[Category: rsgi]]
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[[Category: structural genomics]]
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[[Category: zinc finger]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 13:56:21 2007''
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Current revision

CRYSTAL STRUCTURE OF MUTM (FPG) PROTEIN FROM THERMUS THERMOPHILUS HB8

PDB ID 1ee8

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