2ofk: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older edit
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
No edit summary
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
No edit summary
 
(11 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[Image:2ofk.gif|left|200px]]
<!--
The line below this paragraph, containing "STRUCTURE_2ofk", creates the "Structure Box" on the page.
You may change the PDB parameter (which sets the PDB file loaded into the applet)
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
or leave the SCENE parameter empty for the default display.
-->
{{STRUCTURE_2ofk|  PDB=2ofk  |  SCENE=  }}
'''Crystal Structure of 3-methyladenine DNA glycosylase I (TAG)'''


==Crystal Structure of 3-methyladenine DNA glycosylase I (TAG)==
<StructureSection load='2ofk' size='340' side='right'caption='[[2ofk]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[2ofk]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_Typhi Salmonella enterica subsp. enterica serovar Typhi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OFK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2OFK FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.5&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=2ofk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ofk OCA], [https://pdbe.org/2ofk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ofk RCSB], [https://www.ebi.ac.uk/pdbsum/2ofk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ofk ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q8Z2A5_SALTI Q8Z2A5_SALTI]
== 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/of/2ofk_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=2ofk ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
DNA glycosylases help maintain the genome by excising chemically modified bases from DNA. Escherichia coli 3-methyladenine DNA glycosylase I (TAG) specifically catalyzes the removal of the cytotoxic lesion 3-methyladenine (3mA). The molecular basis for the enzymatic recognition and removal of 3mA from DNA is currently a matter of speculation, in part owing to the lack of a structure of a 3mA-specific glycosylase bound to damaged DNA. Here, high-resolution crystal structures of Salmonella typhi TAG in the unliganded form and in a ternary product complex with abasic DNA and 3mA nucleobase are presented. Despite its structural similarity to the helix-hairpin-helix superfamily of DNA glycosylases, TAG has evolved a modified strategy for engaging damaged DNA. In contrast to other glycosylase-DNA structures, the abasic ribose is not flipped into the TAG active site. This is the first structural demonstration that conformational relaxation must occur in the DNA upon base hydrolysis. Together with mutational studies of TAG enzymatic activity, these data provide a model for the specific recognition and hydrolysis of 3mA from DNA.


==Overview==
DNA damage recognition and repair by 3-methyladenine DNA glycosylase I (TAG).,Metz AH, Hollis T, Eichman BF EMBO J. 2007 May 2;26(9):2411-20. Epub 2007 Apr 5. PMID:17410210<ref>PMID:17410210</ref>
DNA glycosylases help maintain the genome by excising chemically modified bases from DNA. Escherichia coli 3-methyladenine DNA glycosylase I (TAG) specifically catalyzes the removal of the cytotoxic lesion 3-methyladenine (3mA). The molecular basis for the enzymatic recognition and removal of 3mA from DNA is currently a matter of speculation, in part owing to the lack of a structure of a 3mA-specific glycosylase bound to damaged DNA. Here, high-resolution crystal structures of Salmonella typhi TAG in the unliganded form and in a ternary product complex with abasic DNA and 3mA nucleobase are presented. Despite its structural similarity to the helix-hairpin-helix superfamily of DNA glycosylases, TAG has evolved a modified strategy for engaging damaged DNA. In contrast to other glycosylase-DNA structures, the abasic ribose is not flipped into the TAG active site. This is the first structural demonstration that conformational relaxation must occur in the DNA upon base hydrolysis. Together with mutational studies of TAG enzymatic activity, these data provide a model for the specific recognition and hydrolysis of 3mA from DNA.


==About this Structure==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
2OFK is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Salmonella_typhi Salmonella typhi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OFK OCA].
</div>
<div class="pdbe-citations 2ofk" style="background-color:#fffaf0;"></div>


==Reference==
==See Also==
DNA damage recognition and repair by 3-methyladenine DNA glycosylase I (TAG)., Metz AH, Hollis T, Eichman BF, EMBO J. 2007 May 2;26(9):2411-20. Epub 2007 Apr 5. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17410210 17410210]
*[[DNA glycosylase 3D structures|DNA glycosylase 3D structures]]
[[Category: Salmonella typhi]]
== References ==
[[Category: Single protein]]
<references/>
[[Category: Eichman, B F.]]
__TOC__
[[Category: Hollis, T.]]
</StructureSection>
[[Category: Metz, A H.]]
[[Category: Large Structures]]
[[Category: 3-methyladenine]]
[[Category: Salmonella enterica subsp. enterica serovar Typhi]]
[[Category: Base excision]]
[[Category: Eichman BF]]
[[Category: Dna repair]]
[[Category: Hollis T]]
[[Category: Glycosylase]]
[[Category: Metz AH]]
[[Category: Helix-hairpin-helix]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 10:48:28 2008''

Latest revision as of 00:18, 28 December 2023

Crystal Structure of 3-methyladenine DNA glycosylase I (TAG)

2ofk, resolution 1.50Å

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "https://proteopedia.org/index.php?title=2ofk&oldid=4008533"