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	Visualization of the HIV-1 Env glycan shield across scales.
ジャーナル・号・ページ	Proc Natl Acad Sci U S A, Vol. 117, Issue 45, Page 28014-28025, Year 2020
掲載日	2020年11月10日
著者	Zachary T Berndsen / Srirupa Chakraborty / Xiaoning Wang / Christopher A Cottrell / Jonathan L Torres / Jolene K Diedrich / Cesar A López / John R Yates / Marit J van Gils / James C Paulson / Sandrasegaram Gnanakaran / Andrew B Ward /
PubMed 要旨	The dense array of N-linked glycans on the HIV-1 envelope glycoprotein (Env), known as the "glycan shield," is a key determinant of immunogenicity, yet intrinsic heterogeneity confounds typical ...The dense array of N-linked glycans on the HIV-1 envelope glycoprotein (Env), known as the "glycan shield," is a key determinant of immunogenicity, yet intrinsic heterogeneity confounds typical structure-function analysis. Here, we present an integrated approach of single-particle electron cryomicroscopy (cryo-EM), computational modeling, and site-specific mass spectrometry (MS) to probe glycan shield structure and behavior at multiple levels. We found that dynamics lead to an extensive network of interglycan interactions that drive the formation of higher-order structure within the glycan shield. This structure defines diffuse boundaries between buried and exposed protein surface and creates a mapping of potentially immunogenic sites on Env. Analysis of Env expressed in different cell lines revealed how cryo-EM can detect subtle changes in glycan occupancy, composition, and dynamics that impact glycan shield structure and epitope accessibility. Importantly, this identified unforeseen changes in the glycan shield of Env obtained from expression in the same cell line used for vaccine production. Finally, by capturing the enzymatic deglycosylation of Env in a time-resolved manner, we found that highly connected glycan clusters are resistant to digestion and help stabilize the prefusion trimer, suggesting the glycan shield may function beyond immune evasion.
リンク	Proc Natl Acad Sci U S A / PubMed:33093196 / PubMed Central
手法	EM (単粒子)
解像度	3.1 - 3.5 Å
構造データ	22108 6x9r EMDB-22108, PDB-6x9r: HIV-1 Envelope Glycoprotein BG505 SOSIP.664 expressed in HEK293F cells in complex with RM20A3 Fab 手法: EM (単粒子) / 解像度: 3.1 Å 22109 6x9s EMDB-22109, PDB-6x9s: HIV-1 Envelope Glycoprotein BG505 SOSIP.664 expressed in stable CHO cells in complex with RM20A3 Fab 手法: EM (単粒子) / 解像度: 3.1 Å 22110 6x9t EMDB-22110, PDB-6x9t: HIV-1 Envelope Glycoprotein BG505 SOSIP.664 expressed in HEK293S cells in complex with RM20A3 Fab 手法: EM (単粒子) / 解像度: 3.2 Å 22111 6x9u EMDB-22111, PDB-6x9u: HIV-1 Envelope Glycoprotein BG505 SOSIP.664, expressed in HEK293S cells and partially deglycosylated by endoglycosidase H, in complex with RM20A3 Fab 手法: EM (単粒子) / 解像度: 3.2 Å 22112 6x9v EMDB-22112, PDB-6x9v: HIV-1 Envelope Glycoprotein BG505 SOSIP.664, expressed in HEK293S cells and deglycosylated by endoglycosidase H, in complex with RM20A3 Fab 手法: EM (単粒子) / 解像度: 3.5 Å
化合物	ChemComp-NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose / N-アセチル-β-D-グルコサミン / N-アセチルグルコサミン
由来	human immunodeficiency virus 1 (ヒト免疫不全ウイルス) macaca mulatta (アカゲザル)
キーワード	VIRAL PROTEIN/IMMUNE SYSTEM (ウイルス性) / HIV-1 / Envelope (封筒) / glycoprotein (糖タンパク質) / spike / VIRAL PROTEIN-IMMUNE SYSTEM complex (ウイルス性) / vaccine (ワクチン)