5AXF

Crystal Structure Analysis of DNA Duplexes containing sulfoamide-bridged nucleic acid (SuNA-NMe)

Summary for 5AXF

• Entry DOI: 10.2210/pdb5axf/pdb
• Related: 5AXE
• Descriptor: DNA (5'-D(*GP*CP*GP*TP*AP*(LSM)P*AP*CP*GP*C)-3') (2 entities in total)
• Functional Keywords: a-form dna, sulfonamide-bridged nucleic acid, suna[nme], antisense, dna
• Biological source: synthetic construct
• Total number of polymer chains: 2
• Total formula weight: 6300.24

Authors

Mitsuoka, Y.,Aoyama, H.,Kugimiya, A.,Fujimura, Y.,Yamamoto, T.,Waki, R.,Wada, F.,Tahara, S.,Sawamura, M.,Noda, M.,Hari, Y.,Obika, S. (deposition date: 2015-07-28, release date: 2016-07-20, Last modification date: 2024-03-20)

Primary citation

Mitsuoka, Y.,Aoyama, H.,Kugimiya, A.,Fujimura, Y.,Yamamoto, T.,Waki, R.,Wada, F.,Tahara, S.,Sawamura, M.,Noda, M.,Hari, Y.,Obika, S.
Effect of an N-substituent in sulfonamide-bridged nucleic acid (SuNA) on hybridization ability and duplex structure.
Org.Biomol.Chem., 14:6531-6538, 2016

PubMed Abstract: A sulfonamide-bridged nucleic acid without an N-substituent (SuNA[NH]) was successfully synthesized. A comparison of the SuNA[NMe]- and SuNA[NH]-modified oligonucleotides revealed that the duplex-forming abilities of the SuNA[NMe]-modified oligonucleotides with complementary DNA and RNA were higher than those of the SuNA[NH]-modified oligonucleotides. The crystal structures of DNA duplexes containing a SuNA[NR] revealed that the helical structures of the two duplexes and hydration patterns around the bridge moiety were different. These results provide insights into hydration patterns and rationale for the high RNA affinity of SuNA-modified oligonucleotides.

PubMed: 27296230
DOI: 10.1039/c6ob01051b

Experimental method

X-RAY DIFFRACTION (1.13 Å)