2w35

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{{Seed}}
 
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[[Image:2w35.jpg|left|200px]]
 
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==Structures of endonuclease V with DNA reveal initiation of deaminated adenine repair==
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The line below this paragraph, containing "STRUCTURE_2w35", creates the "Structure Box" on the page.
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<StructureSection load='2w35' size='340' side='right'caption='[[2w35]], [[Resolution|resolution]] 2.15&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'>[[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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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]] 2.15&#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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{{STRUCTURE_2w35| PDB=2w35 | 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=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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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 2w35" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_19136958}}, adds the Publication Abstract to the page
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*[[Endonuclease 3D structures|Endonuclease 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 19136958 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_19136958}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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2W35 is a 6 chains structure of sequences 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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[[Category: Synthetic construct]]
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==Reference==
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<ref group="xtra">PMID:19136958</ref><references group="xtra"/>
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[[Category: Deoxyribonuclease V]]
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[[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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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 21 10:38:01 2009''
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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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