2O49

Crystal Structure of the N-terminal CUT domain of SATB1 Bound to Matrix Attachment Region DNA

2O49 の概要

• エントリーDOI: 10.2210/pdb2o49/pdb
• 関連するPDBエントリー: 1YSE 2O4A
• 分子名称: DNA (5'-D(*DGP*DCP*DTP*DAP*DAP*DTP*DAP*DTP*DAP*DTP*DGP*DC)-3'), DNA (5'-D(*DGP*DCP*DAP*DTP*DAP*DTP*DAP*DTP*DTP*DAP*DGP*DC)-3'), DNA-binding protein SATB1, ... (4 entities in total)
• 機能のキーワード: protein-dna complex, transcription, transcription-dna complex, transcription/dna
• 由来する生物種: Homo sapiens (human)
• 細胞内の位置: Nucleus matrix: Q01826
• タンパク質・核酸の鎖数: 3
• 化学式量合計: 18275.21

構造登録者

Yamasaki, K.,Akiba, T.,Harata, K. (登録日: 2006-12-04, 公開日: 2007-08-14, 最終更新日: 2023-10-25)

主引用文献

Yamasaki, K.,Akiba, T.,Yamasaki, T.,Harata, K.
Structural basis for recognition of the matrix attachment region of DNA by transcription factor SATB1.
Nucleic Acids Res., 35:5073-5084, 2007

PubMed Abstract: Special AT-rich sequence binding protein 1 (SATB1) regulates gene expression essential in immune T-cell maturation and switching of fetal globin species, by binding to matrix attachment regions (MARs) of DNA and inducing a local chromatin remodeling. Previously we have revealed a five-helix structure of the N-terminal CUT domain, which is essentially the folded region in the MAR-binding domain, of human SATB1 by NMR. Here we determined crystal structure of the complex of the CUT domain and a MAR DNA, in which the third helix of the CUT domain deeply enters the major groove of DNA in the B-form. Bases of 5'-CTAATA-3' sequence are contacted by this helix, through direct and water-mediated hydrogen bonds and apolar and van der Waals contacts. Mutations at conserved base-contacting residues, Gln402 and Gly403, reduced the DNA-binding activity, which confirmed the importance of the observed interactions involving these residues. A significant number of equivalent contacts are observed also for typically four-helix POU-specific domains of POU-homologous proteins, indicating that these domains share a common framework of the DNA-binding mode, recognizing partially similar DNA sequences.

PubMed: 17652321
DOI: 10.1093/nar/gkm504

実験手法

X-RAY DIFFRACTION (2 Å)