1OOA

CRYSTAL STRUCTURE OF NF-kB(p50)2 COMPLEXED TO A HIGH-AFFINITY RNA APTAMER

1OOA の概要

• エントリーDOI: 10.2210/pdb1ooa/pdb
• 関連するPDBエントリー: 1NFK
• 分子名称: RNA aptamer, Nuclear factor NF-kappa-B p105 subunit (3 entities in total)
• 機能のキーワード: protein-rna complex, transcription factor nf-kb, transcription-rna complex, transcription/rna
• 由来する生物種: Mus musculus (house mouse); 詳細
• 細胞内の位置: Nucleus. Isoform 5: Cytoplasm. Isoform 6: Nucleus. Isoform 7: Nucleus: P25799
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 91962.89

構造登録者

Huang, D.B.,Vu, D.,Cassiday, L.A.,Zimmerman, J.M.,Maher III, L.J.,Ghosh, G. (登録日: 2003-03-03, 公開日: 2003-07-22, 最終更新日: 2023-08-16)

主引用文献

Huang, D.B.,Vu, D.,Cassiday, L.A.,Zimmerman, J.M.,Maher III, L.J.,Ghosh, G.
Crystal structure of NF-kappaB (p50)2 complexed to a high-affinity RNA aptamer.
Proc.Natl.Acad.Sci.USA, 100:9268-9273, 2003

PubMed Abstract: We have recently identified an RNA aptamer for the transcription factor NF-kappaB p50 homodimer [(p50)2], which exhibits little sequence resemblance to the consensus DNA target for (p50)2, but binds (p50)2 with an affinity similar to that of the optimal DNA target. We describe here the 2.45-A resolution x-ray crystal structure of the p50 RHR/RNA aptamer complex. The structure reveals that two RNA molecules bind independent of each other to the p50 N-terminal Ig-like domains. The RNA secondary structure is comprised of a stem and a stem-loop separated by an internal loop folded into a kinked helix because of the cross-strand stacking of three internal loop guanines. These guanines, placed at the edge of the 3' helix, together with the major groove of the irregular 3' helix, form the binding surface for p50. Each p50 monomer uses the same surface to recognize the distorted RNA major groove as observed in the kappaB DNA/p50 RHR complex, resulting in strikingly similar interfaces. The structure reveals how the aptamer specifically selects p50 and discriminates against p65. We also discuss the physiological implications of RNA binding by (p50)2.

PubMed: 12886018
DOI: 10.1073/pnas.1632011100

実験手法

X-RAY DIFFRACTION (2.45 Å)