1sm5

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|PDB= 1sm5 |SIZE=350|CAPTION= <scene name='initialview01'>1sm5</scene>, resolution 2.&Aring;
|PDB= 1sm5 |SIZE=350|CAPTION= <scene name='initialview01'>1sm5</scene>, resolution 2.&Aring;
|SITE=
|SITE=
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|LIGAND=
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|LIGAND= <scene name='pdbligand=BRU:5-BROMO-2&#39;-DEOXYURIDINE-5&#39;-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>
|ACTIVITY=
|ACTIVITY=
|GENE=
|GENE=
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|DOMAIN=
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|RELATEDENTRY=
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1sm5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sm5 OCA], [http://www.ebi.ac.uk/pdbsum/1sm5 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1sm5 RCSB]</span>
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[[Category: uv-damaged dna]]
[[Category: uv-damaged dna]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 14:06:45 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:43:56 2008''

Revision as of 20:43, 30 March 2008

Image:1sm5.gif


PDB ID 1sm5

Drag the structure with the mouse to rotate
, resolution 2.Å
Ligands: , , , ,
Resources: FirstGlance, OCA, PDBsum, RCSB
Coordinates: save as pdb, mmCIF, xml



Crystal Structure of a DNA Decamer Containing a Thymine-dimer


Overview

It is well known that exposure to UV induces DNA damage, which is the first step in mutagenesis and a major cause of skin cancer. Among a variety of photoproducts, cyclobutane-type pyrimidine photodimers (CPD) are the most abundant primary lesion. Despite its biological importance, the precise relationship between the structure and properties of DNA containing CPD has remained to be elucidated. Here, we report the free (unbound) crystal structure of duplex DNA containing a CPD lesion at a resolution of 2.0 A. Our crystal structure shows that the overall helical axis bends approximately 30 degrees toward the major groove and unwinds approximately 9 degrees, in remarkable agreement with some previous theoretical and experimental studies. There are also significant differences in local structure compared with standard B-DNA, including pinching of the minor groove at the 3' side of the CPD lesion, a severe change of the base pair parameter in the 5' side, and serious widening of both minor and major groves both 3' and 5' of the CPD. Overall, the structure of the damaged DNA differs from undamaged DNA to an extent that DNA repair proteins may recognize this conformation, and the various components of the replicational and transcriptional machinery may be interfered with due to the perturbed local and global structure.

About this Structure

1SM5 is a Protein complex structure of sequences from [1]. This structure supersedes the now removed PDB entry 1MV7. Full crystallographic information is available from OCA.

Reference

Crystal structure of a DNA decamer containing a cis-syn thymine dimer., Park H, Zhang K, Ren Y, Nadji S, Sinha N, Taylor JS, Kang C, Proc Natl Acad Sci U S A. 2002 Dec 10;99(25):15965-70. Epub 2002 Nov 27. PMID:12456887

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