2a8g

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|PDB= 2a8g |SIZE=350|CAPTION= <scene name='initialview01'>2a8g</scene>, resolution 1.990&Aring;
|PDB= 2a8g |SIZE=350|CAPTION= <scene name='initialview01'>2a8g</scene>, resolution 1.990&Aring;
|SITE=
|SITE=
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|LIGAND= <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene> and <scene name='pdbligand=GNG:2'-DEOXY-GUANOSINE'>GNG</scene>
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|LIGAND= <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene> and <scene name='pdbligand=GNG:2&#39;-DEOXY-GUANOSINE'>GNG</scene>
|ACTIVITY=
|ACTIVITY=
|GENE=
|GENE=
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[[Category: beta barrel]]
[[Category: beta barrel]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 15:46:36 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 23 14:35:25 2008''

Revision as of 12:35, 23 March 2008

Image:2a8g.gif


PDB ID 2a8g

Drag the structure with the mouse to rotate
, resolution 1.990Å
Ligands: and
Coordinates: save as pdb, mmCIF, xml



Structure of Avidin in complex with the ligand deoxyguanosine


Overview

Oxidative damage of DNA results in the formation of many products, including 8-oxodeoxyguanosine, which has been used as a marker to quantify DNA damage. Earlier studies have demonstrated that avidin, a protein prevalent in egg-white and which has high affinity for the vitamin biotin, binds to 8-oxodeoxyguanosine and related bases. In this study, we have determined crystal structures of avidin in complex with 8-oxodeoxyguanosine and 8-oxodeoxyadenosine. In each case, the base is observed to bind within the biotin-binding site of avidin. However, the mode of association between the bases and the protein varies and, unlike in the avidin:biotin complex, complete ordering of the protein in this region does not accompany binding. Fluorescence studies indicate that in solution the individual bases, and a range of oligonucleotides, bind to avidin with micromolar affinity. Only one of the modes of binding observed is consistent with recognition of oxidised purines when incorporated within a DNA oligomer, and from this structure a model is proposed for the selective binding of avidin to DNA containing oxidatively damaged deoxyguanosine. These studies illustrate the molecular basis by which avidin might act as a marker of DNA damage, although the low levels of binding observed are inconsistent with the recognition of oxidised purines forming a major physiological role for avidin.

About this Structure

2A8G is a Single protein structure of sequence from Gallus gallus. Full crystallographic information is available from OCA.

Reference

Recognition of oxidatively modified bases within the biotin-binding site of avidin., Conners R, Hooley E, Clarke AR, Thomas S, Brady RL, J Mol Biol. 2006 Mar 17;357(1):263-74. Epub 2006 Jan 6. PMID:16413579

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