2f5p: Difference between revisions

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{{Seed}}
[[Image:2f5p.png|left|200px]]


<!--
==MutM crosslinked to undamaged DNA sampling A:T base pair IC2==
The line below this paragraph, containing "STRUCTURE_2f5p", creates the "Structure Box" on the page.
<StructureSection load='2f5p' size='340' side='right'caption='[[2f5p]], [[Resolution|resolution]] 2.00&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'>[[2f5p]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2F5P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2F5P 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&#8491;</td></tr>
-->
<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>
{{STRUCTURE_2f5p| PDB=2f5p |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2f5p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2f5p OCA], [https://pdbe.org/2f5p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2f5p RCSB], [https://www.ebi.ac.uk/pdbsum/2f5p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2f5p ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/P84131_GEOSE P84131_GEOSE] 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).[HAMAP-Rule:MF_00103][SAAS:SAAS020629_004_120556]
== 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/f5/2f5p_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=2f5p ConSurf].
<div style="clear:both"></div>


===MutM crosslinked to undamaged DNA sampling A:T base pair IC2===
==See Also==
 
*[[DNA glycosylase 3D structures|DNA glycosylase 3D structures]]
 
__TOC__
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</StructureSection>
The line below this paragraph, {{ABSTRACT_PUBMED_16497933}}, adds the Publication Abstract to the page
(as it appears on PubMed at http://www.pubmed.gov), where 16497933 is the PubMed ID number.
-->
{{ABSTRACT_PUBMED_16497933}}
 
==About this Structure==
2F5P is a 3 chains structure of sequences from [http://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2F5P OCA].
 
==Reference==
<ref group="xtra">PMID:16497933</ref><references group="xtra"/>
[[Category: DNA-formamidopyrimidine glycosylase]]
[[Category: Geobacillus stearothermophilus]]
[[Category: Geobacillus stearothermophilus]]
[[Category: Banerjee, A.]]
[[Category: Large Structures]]
[[Category: Santos, W L.]]
[[Category: Banerjee A]]
[[Category: Verdine, G L.]]
[[Category: Santos WL]]
[[Category: Damage search]]
[[Category: Verdine GL]]
[[Category: Disulfide crosslink]]
[[Category: Dna glycosylase]]
[[Category: Dna repair]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 04:26:27 2009''
Retrieved from "https://proteopedia.org/2f5p"