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	Structures of the multi-domain oxygen sensor DosP: remote control of a c-di-GMP phosphodiesterase by a regulatory PAS domain.
ジャーナル・号・ページ	Nat Commun, Vol. 15, Issue 1, Page 9653, Year 2024
掲載日	2024年11月7日
著者	Wenbi Wu / Pankaj Kumar / Chad A Brautigam / Shih-Chia Tso / Hamid R Baniasadi / Daniel L Kober / Marie-Alda Gilles-Gonzalez /
PubMed 要旨	The heme-based direct oxygen sensor DosP degrades c-di-GMP, a second messenger nearly unique to bacteria. In stationary phase Escherichia coli, DosP is the most abundant c-di-GMP phosphodiesterase. ...The heme-based direct oxygen sensor DosP degrades c-di-GMP, a second messenger nearly unique to bacteria. In stationary phase Escherichia coli, DosP is the most abundant c-di-GMP phosphodiesterase. Ligation of O to a heme-binding PAS domain (hPAS) of the protein enhances the phosphodiesterase through an allosteric mechanism that has remained elusive. We determine six structures of full-length DosP in its aerobic or anaerobic conformations, with or without c-di-GMP. DosP is an elongated dimer with the regulatory heme containing domain and phosphodiesterase separated by nearly 180 Å. In the absence of substrate, regardless of the heme status, DosP presents an equilibrium of two distinct conformations. Binding of substrate induces DosP to adopt a single, ON-state or OFF-state conformation depending on its heme status. Structural and biochemical studies of this multi-domain sensor and its mutants provide insights into signal regulation of second-messenger levels.
リンク	Nat Commun / PubMed:39511182 / PubMed Central
手法	EM (単粒子)
解像度	3.09 - 4.21 Å
構造データ	44524 9bgv EMDB-44524, PDB-9bgv: DosP R97A straight form 手法: EM (単粒子) / 解像度: 3.65 Å 44646 9bkv EMDB-44646, PDB-9bkv: DosP R97A bent form 手法: EM (単粒子) / 解像度: 3.43 Å 45485 9cdr EMDB-45485, PDB-9cdr: DosP Apo straight form 手法: EM (単粒子) / 解像度: 3.91 Å 45489 9ce0 EMDB-45489, PDB-9ce0: DosP Apo Bent form 手法: EM (単粒子) / 解像度: 3.97 Å EMDB-45645: C-terminal Map of the Wild type DosP with C-Di-GMP substrate 手法: EM (単粒子) / 解像度: 3.11 Å EMDB-45646: N-terminal Map of the Wild type DosP with C-Di-GMP substrate 手法: EM (単粒子) / 解像度: 4.21 Å EMDB-45665: DosP with substrate consensus map 手法: EM (単粒子) / 解像度: 3.69 Å EMDB-45667: DosP-R97A with substrate, C-Terminal map 手法: EM (単粒子) / 解像度: 3.09 Å EMDB-45669: DosP-R97A with substrate, N-terminal map 手法: EM (単粒子) / 解像度: 3.18 Å EMDB-45670: DosP-R97A with substrate, consensus map 手法: EM (単粒子) / 解像度: 3.45 Å 45727 9clo EMDB-45727, PDB-9clo: DosP R97A with c-di-GMP 手法: EM (単粒子) / 解像度: 3.1 Å 45746 9cmf EMDB-45746, PDB-9cmf: Substrate bound DosP 手法: EM (単粒子) / 解像度: 3.11 Å
化合物	ChemComp-HEM: PROTOPORPHYRIN IX CONTAINING FE ChemComp-OXY: OXYGEN MOLECULE / ペルオキシド ChemComp-C2E: 9,9'-[(2R,3R,3aS,5S,7aR,9R,10R,10aS,12S,14aR)-3,5,10,12-tetrahydroxy-5,12-dioxidooctahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8]tetraoxadiphosphacyclododecine-2,9-diyl]bis(2-amino-1,9-dihydro-6H-purin-6-one) / c-di-GMP ChemComp-MG: Unknown entry / マグネシウムジカチオン
由来	E.coli (その他) escherichia coli (大腸菌)
キーワード	OXYGEN BINDING / Heme / DosP / Phosphodiesterase / c-di-GMP