2a5c: Difference between revisions
No edit summary |
No edit summary |
||
| Line 4: | Line 4: | ||
|PDB= 2a5c |SIZE=350|CAPTION= <scene name='initialview01'>2a5c</scene>, resolution 2.500Å | |PDB= 2a5c |SIZE=350|CAPTION= <scene name='initialview01'>2a5c</scene>, resolution 2.500Å | ||
|SITE= | |SITE= | ||
|LIGAND= <scene name='pdbligand= | |LIGAND= <scene name='pdbligand=8DA:8-OXODEOXYADENOSINE'>8DA</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=2a5c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2a5c OCA], [http://www.ebi.ac.uk/pdbsum/2a5c PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2a5c RCSB]</span> | |||
}} | }} | ||
| Line 26: | Line 29: | ||
[[Category: Hooley, E.]] | [[Category: Hooley, E.]] | ||
[[Category: Thomas, S.]] | [[Category: Thomas, S.]] | ||
[[Category: 8-oxodeoxyadenosine]] | [[Category: 8-oxodeoxyadenosine]] | ||
[[Category: avidin]] | [[Category: avidin]] | ||
| Line 33: | Line 34: | ||
[[Category: x-ray crystallography]] | [[Category: x-ray crystallography]] | ||
''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 01:48:02 2008'' | ||
Revision as of 01:48, 31 March 2008
| |||||||
| , resolution 2.500Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Structure of Avidin in complex with the ligand 8-oxodeoxyadenosine
OverviewOverview
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 StructureAbout this Structure
2A5C is a Single protein structure of sequence from Gallus gallus. Full crystallographic information is available from OCA.
ReferenceReference
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
Page seeded by OCA on Mon Mar 31 01:48:02 2008