1aul
From Proteopedia
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'''SOLUTION STRUCTURE OF A HIGHLY STABLE DNA DUPLEX CONJUGATED TO A MINOR GROOVE BINDER, NMR, MINIMIZED AVERAGE STRUCTURE''' | '''SOLUTION STRUCTURE OF A HIGHLY STABLE DNA DUPLEX CONJUGATED TO A MINOR GROOVE BINDER, NMR, MINIMIZED AVERAGE STRUCTURE''' | ||
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==About this Structure== | ==About this Structure== | ||
| - | + | Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AUL OCA]. | |
==Reference== | ==Reference== | ||
Solution structure of a highly stable DNA duplex conjugated to a minor groove binder., Kumar S, Reed MW, Gamper HB Jr, Gorn VV, Lukhtanov EA, Foti M, West J, Meyer RB Jr, Schweitzer BI, Nucleic Acids Res. 1998 Feb 1;26(3):831-8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9443977 9443977] | Solution structure of a highly stable DNA duplex conjugated to a minor groove binder., Kumar S, Reed MW, Gamper HB Jr, Gorn VV, Lukhtanov EA, Foti M, West J, Meyer RB Jr, Schweitzer BI, Nucleic Acids Res. 1998 Feb 1;26(3):831-8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9443977 9443977] | ||
| - | [[Category: Protein complex]] | ||
[[Category: Foti, M.]] | [[Category: Foti, M.]] | ||
[[Category: Gorn, V V.]] | [[Category: Gorn, V V.]] | ||
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[[Category: Schweitzer, B I.]] | [[Category: Schweitzer, B I.]] | ||
[[Category: West, J.]] | [[Category: West, J.]] | ||
| - | [[Category: | + | [[Category: Cdpi3]] |
| - | [[Category: | + | [[Category: Deoxyribonucleic acid]] |
| - | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 10:42:28 2008'' | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | |
Revision as of 07:42, 2 May 2008
SOLUTION STRUCTURE OF A HIGHLY STABLE DNA DUPLEX CONJUGATED TO A MINOR GROOVE BINDER, NMR, MINIMIZED AVERAGE STRUCTURE
Overview
The tripeptide 1,2-dihydro-(3 H )-pyrrolo[3,2- e ]indole-7-carboxylate (CDPI3) binds to the minor groove of DNA with high affinity. When this minor groove binder is conjugated to the 5'-end of short oligonucleotides the conjugates form unusually stable hybrids with complementary DNA and thus may have useful diagnostic and/or therapeutic applications. In order to gain an understanding of the structural interactions between the CDPI3minor groove binding moiety and the DNA, we have determined and compared the solution structure of a duplex consisting of oligodeoxyribonucleotide 5'-TGATTATCTG-3' conjugated at the 5'-end to CDPI3 and its complementary strand to an unmodified control duplex of the same sequence using nuclear magnetic resonance techniques. Thermal denaturation studies indicated that the hybrid of this conjugate with its complementary strand had a melting temperature that was 30 degrees C higher compared with the unmodified control duplex. Following restrained molecular dynamics and relaxation matrix refinement, the solution structure of the CDPI3-conjugated DNA duplex demonstrated that the overall shape of the duplex was that of a straight B-type helix and that the CDPI3moiety was bound snugly in the minor groove, where it was stabilized by extensive van der Waal's interactions.
About this Structure
Full crystallographic information is available from OCA.
Reference
Solution structure of a highly stable DNA duplex conjugated to a minor groove binder., Kumar S, Reed MW, Gamper HB Jr, Gorn VV, Lukhtanov EA, Foti M, West J, Meyer RB Jr, Schweitzer BI, Nucleic Acids Res. 1998 Feb 1;26(3):831-8. PMID:9443977 Page seeded by OCA on Fri May 2 10:42:28 2008
