1pyj: Difference between revisions
No edit summary |
No edit summary |
||
| Line 1: | Line 1: | ||
[[Image:1pyj.gif|left|200px]] | [[Image:1pyj.gif|left|200px]] | ||
'''Solution Structure of an O6-[4-oxo-4-(3-pyridyl)butyl]guanine adduct in an 11mer DNA duplex''' | {{Structure | ||
|PDB= 1pyj |SIZE=350|CAPTION= <scene name='initialview01'>1pyj</scene> | |||
|SITE= | |||
|LIGAND= <scene name='pdbligand=PBO:1-PYRIDIN-3-YLBUTAN-1-ONE'>PBO</scene> | |||
|ACTIVITY= | |||
|GENE= | |||
}} | |||
'''Solution Structure of an O6-[4-oxo-4-(3-pyridyl)butyl]guanine adduct in an 11mer DNA duplex''' | |||
==Overview== | ==Overview== | ||
| Line 7: | Line 16: | ||
==About this Structure== | ==About this Structure== | ||
1PYJ is a [ | 1PYJ is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PYJ OCA]. | ||
==Reference== | ==Reference== | ||
Solution structure of an O6-[4-oxo-4-(3-pyridyl)butyl]guanine adduct in an 11 mer DNA duplex: evidence for formation of a base triplex., Peterson LA, Vu C, Hingerty BE, Broyde S, Cosman M, Biochemistry. 2003 Nov 18;42(45):13134-44. PMID:[http:// | Solution structure of an O6-[4-oxo-4-(3-pyridyl)butyl]guanine adduct in an 11 mer DNA duplex: evidence for formation of a base triplex., Peterson LA, Vu C, Hingerty BE, Broyde S, Cosman M, Biochemistry. 2003 Nov 18;42(45):13134-44. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/14609323 14609323] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Broyde, S.]] | [[Category: Broyde, S.]] | ||
| Line 20: | Line 29: | ||
[[Category: dna adduct]] | [[Category: dna adduct]] | ||
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 13:30:38 2008'' | ||
Revision as of 14:30, 20 March 2008
| |||||||
| Ligands: | |||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Solution Structure of an O6-[4-oxo-4-(3-pyridyl)butyl]guanine adduct in an 11mer DNA duplex
OverviewOverview
The pyridyloxobutylating agents derived from metabolically activated tobacco-specific nitrosamines can covalently modify guanine bases in DNA at the O(6) position. The adduct formed, O(6)-[4-oxo-4-(3-pyridyl)butyl]guanine ([POB]dG), results in mutations that can lead to tumor formation, posing a significant cancer risk to humans exposed to tobacco smoke. A combined NMR-molecular mechanics computational approach was used to determine the solution structure of the [POB]dG adduct within an 11mer duplex sequence d(CCATAT-[POB]G-GCCC).d(GGGCCATATGG). In agreement with the NMR results, the POB ligand is located in the major groove, centered between the flanking 5'-side dT.dA and the 3'-side dG.dC base pairs and thus in the plane of the modified [POB]dG.dC base pair, which is displaced slightly into the minor groove. The modified base pair in the structure adopts wobble base pairing (hydrogen bonds between [POB]dG(N1) and dC(NH4) amino proton and between [POB]dG(NH2) amino proton and dC(N3)). A hydrogen bond appears to occur between the POB carbonyl oxygen and the partner dC's second amino proton. The modified guanine purine base, partner cytosine pyrimidine base, and POB pyridyl ring form a triplex via this unusual hydrogen-bonding pattern. The phosphodiester backbone twists at the lesion site, accounting for the unusual phosphorus chemical shift differences relative to those for the control DNA duplex. The helical distortions and wobble base pairing induced by the covalent binding of POB to the O(6)-position of dG help explain the significant decrease of 17.6 degrees C in melting temperature of the modified duplex relative to the unmodified control.
About this StructureAbout this Structure
1PYJ is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
ReferenceReference
Solution structure of an O6-[4-oxo-4-(3-pyridyl)butyl]guanine adduct in an 11 mer DNA duplex: evidence for formation of a base triplex., Peterson LA, Vu C, Hingerty BE, Broyde S, Cosman M, Biochemistry. 2003 Nov 18;42(45):13134-44. PMID:14609323
Page seeded by OCA on Thu Mar 20 13:30:38 2008