1sjk
From Proteopedia
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|PDB= 1sjk |SIZE=350|CAPTION= <scene name='initialview01'>1sjk</scene> | |PDB= 1sjk |SIZE=350|CAPTION= <scene name='initialview01'>1sjk</scene> | ||
|SITE= | |SITE= | ||
| - | |LIGAND= | + | |LIGAND= <scene name='pdbligand=DA:2'-DEOXYADENOSINE-5'-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5'-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=ORP:2-DEOXY-5-PHOSPHONO-RIBOSE'>ORP</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[1sjl|1SJL]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1sjk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sjk OCA], [http://www.ebi.ac.uk/pdbsum/1sjk PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1sjk RCSB]</span> | ||
}} | }} | ||
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[[Category: duplex dna with an abasic site in a da tract]] | [[Category: duplex dna with an abasic site in a da tract]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:42:55 2008'' |
Revision as of 20:42, 30 March 2008
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| Ligands: | , , , , | ||||||
| Related: | 1SJL
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| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
A DUPLEX DNA WITH AN ABASIC SITE IN A DA TRACT, ALPHA FORM, NMR, MINIMIZED AVERAGE STRUCTURE
Overview
The presence of dA tracts in DNA can lead to stable curvature of the DNA, and this curvature can be important in gene regulation, DNA packaging, and other processes. Since damage to DNA may eliminate this stable curvature, the solution state structure of the duplex of d(CGCAAAAATGCG) paired with d(CGCATTDTTCCG), with D indicating an abasic site, has been determined. The undamaged DNA bends into the major groove both in solution and in the crystal state. The presence of the abasic site in the dA tract region induces changes in the DNA structure up to four base pairs away from the damaged site. The structure of the DNA is dependent on whether the abasic site is in the alpha or beta hemiacetal form. These consequences are quite different from the more localized effects that have been observed for "normal" DNAs containing abasic sites. Thus, there appears to be a strong sequence dependence of the structural effects of abasic sites just as there is for undamaged DNA. Furthermore, these results indicate that the presence of an abasic site can alter DNA bending and hence is likely to have significant long range effects on gene regulation and other properties that are dependent on the stable curvature of DNA.
About this Structure
1SJK is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Solution structure of a duplex DNA with an abasic site in a dA tract., Wang KY, Parker SA, Goljer I, Bolton PH, Biochemistry. 1997 Sep 30;36(39):11629-39. PMID:9305952
Page seeded by OCA on Sun Mar 30 23:42:55 2008
