2w35

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[[Image:2w35.png|left|200px]]
 
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{{STRUCTURE_2w35| PDB=2w35 | SCENE= }}
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==Structures of endonuclease V with DNA reveal initiation of deaminated adenine repair==
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<StructureSection load='2w35' size='340' side='right'caption='[[2w35]], [[Resolution|resolution]] 2.15&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2w35]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W35 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2W35 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]] 2.15&#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=MG:MAGNESIUM+ION'>MG</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=2w35 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w35 OCA], [https://pdbe.org/2w35 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2w35 RCSB], [https://www.ebi.ac.uk/pdbsum/2w35 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2w35 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/NFI_THEMA NFI_THEMA] Selectively cleaves double-stranded DNA at the second phosphodiester bond 3' to a deoxyinosine leaving behind the intact lesion on the nicked DNA. Acts in DNA repair. In vitro, can also cleave single-stranded substrates with inosine, double-stranded DNA with apurinic sites, or DNA sites with uracil or a mismatched base. When present in molar excess, two protein molecules can bind to the same DNA substrate and effect cleavage of both strands (in vitro).<ref>PMID:12081482</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/w3/2w35_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=2w35 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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Endonuclease V (EndoV) initiates a major base-repair pathway for nitrosative deamination resulting from endogenous processes and increased by oxidative stress from mitochondrial dysfunction or inflammatory responses. We solved the crystal structures of Thermotoga maritima EndoV in complex with a hypoxanthine lesion substrate and with product DNA. The PYIP wedge motif acts as a minor groove-damage sensor for helical distortions and base mismatches and separates DNA strands at the lesion. EndoV incises DNA with an unusual offset nick 1 nucleotide 3' of the lesion, as the deaminated adenine is rotated approximately 90 degrees into a recognition pocket approximately 8 A from the catalytic site. Tight binding by the lesion-recognition pocket in addition to Mg(2+) and hydrogen-bonding interactions to the DNA ends stabilize the product complex, suggesting an orderly recruitment of downstream proteins in this base-repair pathway.
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===STRUCTURES OF ENDONUCLEASE V WITH DNA REVEAL INITIATION OF DEAMINATED ADENINE REPAIR===
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Structures of endonuclease V with DNA reveal initiation of deaminated adenine repair.,Dalhus B, Arvai AS, Rosnes I, Olsen OE, Backe PH, Alseth I, Gao H, Cao W, Tainer JA, Bjoras M Nat Struct Mol Biol. 2009 Feb;16(2):138-43. Epub 2009 Jan 11. PMID:19136958<ref>PMID:19136958</ref>
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{{ABSTRACT_PUBMED_19136958}}
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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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==About this Structure==
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<div class="pdbe-citations 2w35" style="background-color:#fffaf0;"></div>
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[[2w35]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W35 OCA].
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==See Also==
==See Also==
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*[[Endonuclease|Endonuclease]]
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*[[Endonuclease 3D structures|Endonuclease 3D structures]]
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== References ==
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==Reference==
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<references/>
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<ref group="xtra">PMID:019136958</ref><references group="xtra"/>
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__TOC__
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[[Category: Deoxyribonuclease V]]
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</StructureSection>
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[[Category: Large Structures]]
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[[Category: Synthetic construct]]
[[Category: Thermotoga maritima]]
[[Category: Thermotoga maritima]]
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[[Category: Alseth, I.]]
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[[Category: Alseth I]]
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[[Category: Arvai, A S.]]
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[[Category: Arvai AS]]
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[[Category: Backe, P H.]]
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[[Category: Backe PH]]
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[[Category: Bjoras, M.]]
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[[Category: Bjoras M]]
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[[Category: Cao, W.]]
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[[Category: Cao W]]
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[[Category: Dalhus, B.]]
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[[Category: Dalhus B]]
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[[Category: Gao, H.]]
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[[Category: Gao H]]
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[[Category: Olsen, O E.]]
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[[Category: Olsen OE]]
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[[Category: Rosnes, I.]]
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[[Category: Rosnes I]]
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[[Category: Tainer, J A.]]
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[[Category: Tainer JA]]
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[[Category: Dna damage]]
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[[Category: Dna repair]]
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[[Category: Endonuclease]]
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[[Category: Endonucleasev]]
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[[Category: Hydrolase]]
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[[Category: Hypoxanthine]]
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[[Category: Inosine]]
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Current revision

Structures of endonuclease V with DNA reveal initiation of deaminated adenine repair

PDB ID 2w35

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