2a8g
From Proteopedia
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|PDB= 2a8g |SIZE=350|CAPTION= <scene name='initialview01'>2a8g</scene>, resolution 1.990Å | |PDB= 2a8g |SIZE=350|CAPTION= <scene name='initialview01'>2a8g</scene>, resolution 1.990Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=GNG:2'-DEOXY-GUANOSINE'>GNG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2a8g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2a8g OCA], [http://www.ebi.ac.uk/pdbsum/2a8g PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2a8g RCSB]</span> | ||
}} | }} | ||
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[[Category: Hooley, E.]] | [[Category: Hooley, E.]] | ||
[[Category: Thomas, S.]] | [[Category: Thomas, S.]] | ||
| - | [[Category: GNG]] | ||
| - | [[Category: NAG]] | ||
[[Category: beta barrel]] | [[Category: beta barrel]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 01:49:21 2008'' |
Revision as of 22:49, 30 March 2008
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| , resolution 1.990Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| 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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