2i5w: Difference between revisions

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{{Seed}}
[[Image:2i5w.png|left|200px]]


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==Structure of hOGG1 crosslinked to DNA sampling a normal G adjacent to an oxoG==
The line below this paragraph, containing "STRUCTURE_2i5w", creates the "Structure Box" on the page.
<StructureSection load='2i5w' size='340' side='right'caption='[[2i5w]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)  
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[2i5w]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2I5W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2I5W FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.6&#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=8OG:8-OXO-2-DEOXY-GUANOSINE-5-MONOPHOSPHATE'>8OG</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
{{STRUCTURE_2i5w| PDB=2i5w |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2i5w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2i5w OCA], [https://pdbe.org/2i5w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2i5w RCSB], [https://www.ebi.ac.uk/pdbsum/2i5w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2i5w ProSAT]</span></td></tr>
</table>
== Disease ==
[https://www.uniprot.org/uniprot/OGG1_HUMAN OGG1_HUMAN] Defects in OGG1 may be a cause of renal cell carcinoma (RCC) [MIM:[https://omim.org/entry/144700 144700]. It is a heterogeneous group of sporadic or hereditary carcinoma derived from cells of the proximal renal tubular epithelium. It is subclassified into clear cell renal carcinoma (non-papillary carcinoma), papillary renal cell carcinoma, chromophobe renal cell carcinoma, collecting duct carcinoma with medullary carcinoma of the kidney, and unclassified renal cell carcinoma.
== Function ==
[https://www.uniprot.org/uniprot/OGG1_HUMAN OGG1_HUMAN] DNA repair enzyme that incises DNA at 8-oxoG residues. Excises 7,8-dihydro-8-oxoguanine and 2,6-diamino-4-hydroxy-5-N-methylformamidopyrimidine (FAPY) from damaged DNA. Has a beta-lyase activity that nicks DNA 3' to the lesion.
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/i5/2i5w_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</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=2i5w ConSurf].
<div style="clear:both"></div>


===Structure of hOGG1 crosslinked to DNA sampling a normal G adjacent to an oxoG===
==See Also==
 
*[[DNA glycosylase 3D structures|DNA glycosylase 3D structures]]
 
__TOC__
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</StructureSection>
The line below this paragraph, {{ABSTRACT_PUBMED_17015827}}, adds the Publication Abstract to the page
(as it appears on PubMed at http://www.pubmed.gov), where 17015827 is the PubMed ID number.
-->
{{ABSTRACT_PUBMED_17015827}}
 
==About this Structure==
2I5W is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2I5W OCA].
 
==Reference==
A nucleobase lesion remodels the interaction of its normal neighbor in a DNA glycosylase complex., Banerjee A, Verdine GL, Proc Natl Acad Sci U S A. 2006 Oct 10;103(41):15020-5. Epub 2006 Oct 2. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17015827 17015827]
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Banerjee, A.]]
[[Category: Banerjee A]]
[[Category: Verdine, G L.]]
[[Category: Verdine GL]]
[[Category: Disulfide crosslink]]
[[Category: Dna glycosylase]]
[[Category: Protein-dna complex]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 19:03:14 2008''
Retrieved from "https://proteopedia.org/2i5w"