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| | ==MvNei1-G86D== | | ==MvNei1-G86D== |
| - | <StructureSection load='4nrw' size='340' side='right' caption='[[4nrw]], [[Resolution|resolution]] 2.84Å' scene=''> | + | <StructureSection load='4nrw' size='340' side='right'caption='[[4nrw]], [[Resolution|resolution]] 2.84Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[4nrw]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Apmv Apmv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NRW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4NRW FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[4nrw]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Acanthamoeba_polyphaga_mimivirus Acanthamoeba polyphaga mimivirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NRW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4NRW FirstGlance]. <br> |
| - | </td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.845Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4nrv|4nrv]]</td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Endonuclease VIII (nei) 1, MIMI_L315 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=212035 APMV])</td></tr>
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4nrw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nrw OCA], [https://pdbe.org/4nrw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4nrw RCSB], [https://www.ebi.ac.uk/pdbsum/4nrw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4nrw ProSAT]</span></td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4nrw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nrw OCA], [http://pdbe.org/4nrw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4nrw RCSB], [http://www.ebi.ac.uk/pdbsum/4nrw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4nrw ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/FPG_MIMIV FPG_MIMIV] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | ==See Also== | | ==See Also== |
| - | *[[DNA glycosylase|DNA glycosylase]] | + | *[[DNA glycosylase 3D structures|DNA glycosylase 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Apmv]] | + | [[Category: Acanthamoeba polyphaga mimivirus]] |
| - | [[Category: Doublie, S]] | + | [[Category: Large Structures]] |
| - | [[Category: Prakash, A]] | + | [[Category: Doublie S]] |
| - | [[Category: Dna glycosylase]] | + | [[Category: Prakash A]] |
| - | [[Category: Dna lyase]]
| + | |
| - | [[Category: Helix two-turns helix motif]]
| + | |
| - | [[Category: Hydrolase]]
| + | |
| - | [[Category: Lyase-dna complex]]
| + | |
| - | [[Category: Thf]]
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| - | [[Category: Zinc-less finger domain]]
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| Structural highlights
Function
FPG_MIMIV
Publication Abstract from PubMed
The repair of free-radical oxidative DNA damage is carried out by lesion-specific DNA glycosylases as the first step of the highly conserved base excision repair (BER) pathway. In humans, three orthologs of the prototypical endonuclease VIII (Nei), the Nei-like NEIL1-3 enzymes are involved in the repair of oxidized DNA lesions. In recent years, several genome and cancer single-nucleotide polymorphic variants of the NEIL1 glycosylase have been identified. In this study we characterized four variants of human NEIL1: S82C, G83D, P208S, and DeltaE28, and tested their ability to excise pyrimidine-derived lesions such as thymine glycol (Tg), 5-hydroxyuracil (5-OHU), and dihydrouracil (DHU) and the purine-derived guanidinohydantoin (Gh), spiroiminodihydantoin 1 (Sp1), and methylated 2,6-diamino-4-hydroxy-5-formamidopyrimidine (MeFapyG). The P208S variant has near wild-type activity on all substrates tested. The S82C and DeltaE28 variants exhibit decreased Tg excision compared to wild-type. G83D displays little to no activity with any of the substrates tested, with the exception of Gh and Sp1. Human NEIL1 is known to undergo editing whereby the lysine at position 242 is recoded into an arginine. The non-edited form of NEIL1 is more efficient at cleaving Tg than the R242 form, but the G83D variant does not cleave Tg regardless of the edited status of NEIL1. The corresponding G86D variant in Mimivirus Nei1 similarly lacks glycosylase activity. A structure of a G86D-DNA complex reveals a rearrangement in the beta4/5 loop comprising Leu84, the highly-conserved void-filling residue, thereby providing a structural rationale for the decreased glycosylase activity of the glycine to aspartate variant.
Genome and cancer single nucleotide polymorphisms of the human NEIL1 DNA glycosylase: Activity, structure, and the effect of editing.,Prakash A, Carroll BL, Sweasy JB, Wallace SS, Doublie S DNA Repair (Amst). 2014 Feb;14:17-26. doi: 10.1016/j.dnarep.2013.12.003. Epub, 2013 Dec 29. PMID:24382305[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Prakash A, Carroll BL, Sweasy JB, Wallace SS, Doublie S. Genome and cancer single nucleotide polymorphisms of the human NEIL1 DNA glycosylase: Activity, structure, and the effect of editing. DNA Repair (Amst). 2014 Feb;14:17-26. doi: 10.1016/j.dnarep.2013.12.003. Epub, 2013 Dec 29. PMID:24382305 doi:http://dx.doi.org/10.1016/j.dnarep.2013.12.003
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