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	Structural and functional insights into oligopeptide acquisition by the RagAB transporter from Porphyromonas gingivalis.
ジャーナル・号・ページ	Nat Microbiol, Vol. 5, Issue 8, Page 1016-1025, Year 2020
掲載日	2020年5月11日
著者	Mariusz Madej / Joshua B R White / Zuzanna Nowakowska / Shaun Rawson / Carsten Scavenius / Jan J Enghild / Grzegorz P Bereta / Karunakar Pothula / Ulrich Kleinekathoefer / Arnaud Baslé / Neil A Ranson / Jan Potempa / Bert van den Berg /
PubMed 要旨	Porphyromonas gingivalis, an asaccharolytic member of the Bacteroidetes, is a keystone pathogen in human periodontitis that may also contribute to the development of other chronic inflammatory ...Porphyromonas gingivalis, an asaccharolytic member of the Bacteroidetes, is a keystone pathogen in human periodontitis that may also contribute to the development of other chronic inflammatory diseases. P. gingivalis utilizes protease-generated peptides derived from extracellular proteins for growth, but how these peptides enter the cell is not clear. Here, we identify RagAB as the outer-membrane importer for these peptides. X-ray crystal structures show that the transporter forms a dimeric RagAB complex, with the RagB substrate-binding surface-anchored lipoprotein forming a closed lid on the RagA TonB-dependent transporter. Cryo-electron microscopy structures reveal the opening of the RagB lid and thus provide direct evidence for a 'pedal bin' mechanism of nutrient uptake. Together with mutagenesis, peptide-binding studies and RagAB peptidomics, our work identifies RagAB as a dynamic, selective outer-membrane oligopeptide-acquisition machine that is essential for the efficient utilization of proteinaceous nutrients by P. gingivalis.
リンク	Nat Microbiol / PubMed:32393857 / PubMed Central
手法	EM (単粒子) / X線回折
解像度	2.61 - 3.4 Å
構造データ	10241 6sm3 EMDB-10241, PDB-6sm3: Structure of the RagAB peptide importer in the 'closed-closed' state 手法: EM (単粒子) / 解像度: 3.3 Å 10243 6sml EMDB-10243, PDB-6sml: Structure of the RagAB peptide importer in the 'open-open' state 手法: EM (単粒子) / 解像度: 3.4 Å 10245 6smq EMDB-10245, PDB-6smq: Structure of the RagAB peptide importer in the 'open-closed' state 手法: EM (単粒子) / 解像度: 3.3 Å PDB-6sli: Structure of the RagAB peptide transporter 手法: X-RAY DIFFRACTION / 解像度: 3.38 Å PDB-6slj: Structure of the RagAB peptide transporter 手法: X-RAY DIFFRACTION / 解像度: 3.04 Å PDB-6sln: Structure of the RagAB peptide transporter 手法: X-RAY DIFFRACTION / 解像度: 2.61 Å
化合物	ChemComp-5PL: (1R,4S,6R)-6-({[2-(ACETYLAMINO)-2-DEOXY-ALPHA-D-GLUCOPYRANOSYL]OXY}METHYL)-4-HYDROXY-1-{[(15-METHYLHEXADECANOYL)OXY]METHYL}-4-OXIDO-7-OXO-3,5-DIOXA-8-AZA-4-PHOSPHAHEPTACOS-1-YL 15-METHYLHEXADECANOATE ChemComp-C8E: (HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE / テトラエチレングリコ-ルモノオクチルエ-テル / C8E, 可溶化剤YM ChemComp-3PE: 1,2-Distearoyl-sn-glycerophosphoethanolamine / DSPE / リン脂質YM / ホスファチジルエタノールアミン ChemComp-LMT: DODECYL-BETA-D-MALTOSIDE / ドデシルβ-D-マルトシド / 可溶化剤YM ChemComp-PLM: PALMITIC ACID / パルミチン酸 / パルミチン酸 ChemComp-HOH*: WATER / 水
由来	porphyromonas gingivalis w83 (ポルフィロモナス・ジンジバリス) porphyromonas gingivalis (strain atcc baa-308 / w83) (ポルフィロモナス・ジンジバリス)
キーワード	MEMBRANE PROTEIN (膜タンパク質) / outer membrane protein / Bacteroidetes / TonB dependent transporter / Beta-barrel (Βバレル) / OMP / TonB-dependent / transporter (運搬体タンパク質)