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	An ensemble of interconverting conformations of the elemental paused transcription complex creates regulatory options.
ジャーナル・号・ページ	Proc Natl Acad Sci U S A, Vol. 120, Issue 8, Page e2215945120, Year 2023
掲載日	2023年2月21日
著者	Jin Young Kang / Tatiana V Mishanina / Yu Bao / James Chen / Eliza Llewellyn / James Liu / Seth A Darst / Robert Landick /
PubMed 要旨	Transcriptional pausing underpins the regulation of cellular RNA synthesis, but its mechanism remains incompletely understood. Sequence-specific interactions of DNA and RNA with the dynamic, ...Transcriptional pausing underpins the regulation of cellular RNA synthesis, but its mechanism remains incompletely understood. Sequence-specific interactions of DNA and RNA with the dynamic, multidomain RNA polymerase (RNAP) trigger reversible conformational changes at pause sites that temporarily interrupt the nucleotide addition cycle. These interactions initially rearrange the elongation complex (EC) into an elemental paused EC (ePEC). ePECs can form longer-lived PECs by further rearrangements or interactions of diffusible regulators. For both bacterial and mammalian RNAPs, a half-translocated state in which the next DNA template base fails to load into the active site appears central to the ePEC. Some RNAPs also swivel interconnected modules that may stabilize the ePEC. However, it is unclear whether swiveling and half-translocation are requisite features of a single ePEC state or if multiple ePEC states exist. Here, we use cryo-electron microscopy (cryo-EM) analysis of ePECs with different RNA-DNA sequences combined with biochemical probes of ePEC structure to define an interconverting ensemble of ePEC states. ePECs occupy either pre- or half-translocated states but do not always swivel, indicating that difficulty in forming the posttranslocated state at certain RNA-DNA sequences may be the essence of the ePEC. The existence of multiple ePEC conformations has broad implications for transcriptional regulation.
リンク	Proc Natl Acad Sci U S A / PubMed:36795753 / PubMed Central
手法	EM (単粒子)
解像度	3.2 - 5.5 Å
構造データ	28109 8eg7 EMDB-28109, PDB-8eg7: Cryo-EM structure of pre-consensus elemental paused elongation complex 手法: EM (単粒子) / 解像度: 3.2 Å 28110 8eg8 EMDB-28110, PDB-8eg8: Cryo-EM structure of consensus elemental paused elongation complex with a folded TL 手法: EM (単粒子) / 解像度: 3.3 Å 28113 8egb EMDB-28113, PDB-8egb: Cryo-EM structure of consensus elemental paused elongation complex with an unfolded TL 手法: EM (単粒子) / 解像度: 3.8 Å 28143 8eh8 EMDB-28143, PDB-8eh8: Cryo-EM structure of his-elemental paused elongation complex with a folded TL and a rotated RH-FL (1) 手法: EM (単粒子) / 解像度: 3.4 Å 28144 8eh9 EMDB-28144, PDB-8eh9: Cryo-EM structure of his-elemental paused elongation complex with a folded TL and a rotated RH-FL (2) 手法: EM (単粒子) / 解像度: 3.9 Å 28145 8eha EMDB-28145, PDB-8eha: Cryo-EM structure of his-elemental paused elongation complex with a folded TL and a rotated RH-FL (out) 手法: EM (単粒子) / 解像度: 3.7 Å 28146 8ehf EMDB-28146, PDB-8ehf: Cryo-EM structure of his-elemental paused elongation complex with an unfolded TL (1) 手法: EM (単粒子) / 解像度: 3.3 Å 28148 8ehi EMDB-28148, PDB-8ehi: Cryo-EM structure of his-elemental paused elongation complex with an unfolded TL (2) 手法: EM (単粒子) / 解像度: 5.5 Å
化合物	ChemComp-1N7: CHAPSO / CHAPSO / 可溶化剤YM / CHAPS detergent ChemComp-MG: Unknown entry / マグネシウムジカチオン ChemComp-ZN: Unknown entry ChemComp-4QM*: (3R,5S,7R,8R,9S,10S,12S,13R,14S,17R)-10,13-dimethyl-17-[(2R)-pentan-2-yl]-2,3,4,5,6,7,8,9,11,12,14,15,16,17-tetradecahydro-1H-cyclopenta[a]phenanthrene-3,7,12-triol / 5β-コラン-3α,7α,12α-トリオ-ル
由来	escherichia coli (大腸菌)
キーワード	TRANSCRIPTION (転写 (生物学)) / TRANSFERASE/DNA/RNA / RNA polymerase (RNAポリメラーゼ) / cryo-EM structure / elemental pause / Escherichia coli (大腸菌) / TRANSFERASE-DNA-RNA complex / transcriptional regulation / transcriptional pausing