EMDB/PDB/SASBDBから引用されている文献のデータベース

キーワード
構造解析手法	All X線回折 NMR 電子顕微鏡小角散乱中性子線回折線維回折粉末回折赤外分光 EPR FRET 理論モデルハイブリッド
著者・登録者
ジャーナル
IF	>30 >20 >10 >5 all

タイトル	Histone modifications regulate pioneer transcription factor cooperativity.
ジャーナル・号・ページ	Nature, Vol. 619, Issue 7969, Page 378-384, Year 2023
掲載日	2023年5月24日
著者	Kalyan K Sinha / Silvija Bilokapic / Yongming Du / Deepshikha Malik / Mario Halic /
PubMed 要旨	Pioneer transcription factors have the ability to access DNA in compacted chromatin. Multiple transcription factors can bind together to a regulatory element in a cooperative way, and cooperation ...Pioneer transcription factors have the ability to access DNA in compacted chromatin. Multiple transcription factors can bind together to a regulatory element in a cooperative way, and cooperation between the pioneer transcription factors OCT4 (also known as POU5F1) and SOX2 is important for pluripotency and reprogramming. However, the molecular mechanisms by which pioneer transcription factors function and cooperate on chromatin remain unclear. Here we present cryo-electron microscopy structures of human OCT4 bound to a nucleosome containing human LIN28B or nMATN1 DNA sequences, both of which bear multiple binding sites for OCT4. Our structural and biochemistry data reveal that binding of OCT4 induces changes to the nucleosome structure, repositions the nucleosomal DNA and facilitates cooperative binding of additional OCT4 and of SOX2 to their internal binding sites. The flexible activation domain of OCT4 contacts the N-terminal tail of histone H4, altering its conformation and thus promoting chromatin decompaction. Moreover, the DNA-binding domain of OCT4 engages with the N-terminal tail of histone H3, and post-translational modifications at H3K27 modulate DNA positioning and affect transcription factor cooperativity. Thus, our findings suggest that the epigenetic landscape could regulate OCT4 activity to ensure proper cell programming.
リンク	Nature / PubMed:37225990 / PubMed Central
手法	EM (単粒子)
解像度	2.3 - 8.1 Å
構造データ	29837 8g86 EMDB-29837, PDB-8g86: Human Oct4 bound to nucleosome with human nMatn1 sequence (focused refinement of nucleosome) 手法: EM (単粒子) / 解像度: 2.3 Å 29841 8g87 EMDB-29841, PDB-8g87: Human Oct4 bound to nucleosome with human nMatn1 sequence (focused refinement of Oct4 bound region) 手法: EM (単粒子) / 解像度: 8.1 Å 29843 8g88 EMDB-29843, PDB-8g88: Human Oct4 bound to nucleosome with human nMatn1 sequence 手法: EM (単粒子) / 解像度: 2.3 Å 29845 8g8b EMDB-29845, PDB-8g8b: Nucleosome with human nMatn1 sequence in complex with Human Oct4 手法: EM (単粒子) / 解像度: 4.3 Å 29846 8g8e EMDB-29846, PDB-8g8e: Human Oct4 bound to nucleosome with human LIN28B sequence 手法: EM (単粒子) / 解像度: 3.9 Å 29850 8g8g EMDB-29850, PDB-8g8g: Interaction of H3 tail in LIN28B nucleosome with Oct4 手法: EM (単粒子) / 解像度: 3.2 Å EMDB-29852: Oct4 interaction with H2A C-terminal tail in LIN28B nucleosome 手法: EM (単粒子) / 解像度: 3.5 Å EMDB-29853: H4 tail conformation A in Oct4 bound LIN28 nucleosome 手法: EM (単粒子) / 解像度: 3.2 Å EMDB-29854: H4 tail conformation B in Oct4 bound LIN28B nucleosome 手法: EM (単粒子) / 解像度: 2.8 Å EMDB-29855: All Oct4 bound LIN28 nucleosomes 手法: EM (単粒子) / 解像度: 2.8 Å
由来	xenopus laevis (アフリカツメガエル) xenopus laevis laevis (アフリカツメガエル) homo sapiens (ヒト)
キーワード	DNA BINDING PROTEIN/DNA / Oct4 (Oct-4) / Nucleosome (ヌクレオソーム) / Histone (ヒストン) / nMatn1 DNA / DNA BINDING PROTEIN-DNA complex / Pioneer factor / LIN28B DNA / iPSC