2RRR

DNA oligomer containing ethylene cross-linked cyclic 2'-deoxyuridylate dimer

Summary for 2RRR

• Entry DOI: 10.2210/pdb2rrr/pdb
• Related: 2rrq
• NMR Information: BMRB: 11438
• Descriptor: DNA (5'-D(*CP*CP*TP*TP*CP*AP*TP*TP*AP*CP*AP*TP*CP*C)-3'), DNA (5'-D(*GP*GP*AP*TP*GP*TP*AP*AP*TP*GP*AP*AP*GP*G)-3') (2 entities in total)
• Functional Keywords: dna, nucleic acid, deoxyuridylate, bent dna
• Total number of polymer chains: 2
• Total formula weight: 8559.61

Authors

Furuita, K.,Murata, S.,Jee, J.G.,Ichikawa, S.,Matsuda, A.,Kojima, C. (deposition date: 2011-03-24, release date: 2011-06-08, Last modification date: 2024-05-01)

Primary citation

Furuita, K.,Murata, S.,Jee, J.G.,Ichikawa, S.,Matsuda, A.,Kojima, C.
Structural Feature of Bent DNA Recognized by HMGB1
J.Am.Chem.Soc., 133:5788-5790, 2011

PubMed Abstract: High Mobility Group Box 1 (HMGB1) protein, a potential therapeutic target, binds bent DNAs structure-specifically. Here we report on a crucial structural feature of the bent DNA required for strong binding to HMGB1. NMR structures of two bent DNA oligomers, only one of which binds strongly to HMGB1, revealed that the presence of a pocket structure on the minor groove is crucial for strong binding through penetration of a phenylalanine residue.

PubMed: 21443191
DOI: 10.1021/ja2013399

Experimental method

SOLUTION NMR