Database of articles cited by EMDB/PDB/SASBDB data

Keywords
Structure methods	All X-ray diffraction NMR electron microscopy small angle scattering neutron diffraction fiber diffraction powder diffraction infrared spectroscopy EPR fluorescence transfer theoretical model Hybrid
Author
Journal
IF	>30 >20 >10 >5 all

Title	Early fusion intermediate of ACE2-using coronavirus spike acting as an antiviral target.
Journal, issue, pages	Cell, Vol. 188, Issue 5, Page 1297-1314.e24, Year 2025
Publish date	Mar 6, 2025
Authors	Lixiao Xing / Zhimin Liu / Xinling Wang / Qianying Liu / Wei Xu / Qiyu Mao / Xiang Zhang / Aihua Hao / Shuai Xia / Zezhong Liu / Lujia Sun / Guangxu Zhang / Qian Wang / Zhenguo Chen / Shibo Jiang / Lei Sun / Lu Lu /
PubMed Abstract	Coronavirus fusion with and entry into the host cell depends on viral spike, which acts as a crucial component of viral infection. However, the lack of receptor-activated spike intermediate ...Coronavirus fusion with and entry into the host cell depends on viral spike, which acts as a crucial component of viral infection. However, the lack of receptor-activated spike intermediate conformation has hindered a comprehensive understanding of spike-induced membrane fusion. Here, we captured an angiotensin-converting enzyme 2 (ACE2)-induced early fusion intermediate conformation (E-FIC) of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) spike in which heptad repeat 1 (HR1) in S2 has ejected while S1 remains attached. This E-FIC can transition to the late FIC after S2' cleavage. Leveraging this discovery, we designed an E-FIC-targeted dual-functional antiviral protein, AL5E. AL5E effectively inactivated ACE2-using coronaviruses and inhibited their infection, outperforming a mono-functional antiviral in protecting animals against these coronaviruses. This study has identified the E-FIC and used it as a target for the development of a dual-functional antiviral for the prevention and treatment of ACE2-using coronavirus infection.
External links	Cell / PubMed:39889696
Methods	EM (single particle)
Resolution	2.99 - 3.92 Å
Structure data	39756 8z3w EMDB-39756, PDB-8z3w: Cryo-EM structure of SARS-CoV-2 D614G S with one ACE2 receptor binding (RB1) in prefusion conformation Method: EM (single particle) / Resolution: 3.45 Å 39771 8z4x EMDB-39771, PDB-8z4x: Cryo-EM structure of SARS-CoV-2 D614G S with two ACE2 receptors binding (RB2) in prefusion conformation Method: EM (single particle) / Resolution: 3.4 Å 39791 8z64 EMDB-39791, PDB-8z64: Cryo-EM structure of SARS-CoV-2 D614G S with three ACE2 receptors binding (RB3) in prefusion conformation (focused refinement of NTD-SD1-RBD-ACE2) Method: EM (single particle) / Resolution: 3.53 Å 39796 8z6a EMDB-39796, PDB-8z6a: Cryo-EM structure of SARS-CoV-2 D614G S with three ACE2 receptors binding (RB3) in prefusion conformation Method: EM (single particle) / Resolution: 2.99 Å 39811 8z7b EMDB-39811, PDB-8z7b: Cryo-EM structure of SARS-CoV-2 S trimer in the early fusion intermediate conformation (E-FIC) (focused refinement of NTD-SD1-RBD-ACE2) Method: EM (single particle) / Resolution: 3.3 Å 39813 8z7g EMDB-39813, PDB-8z7g: Cryo-EM structure of SARS-CoV-2 S trimer in the early fusion intermediate conformation (E-FIC) (focused refinement of intact S2) Method: EM (single particle) / Resolution: 3.06 Å EMDB-39817: Cryo-EM structure of SARS-CoV-2 S trimer in the early fusion intermediate conformation (E-FIC) (focused refinement of S2-bottom) Method: EM (single particle) / Resolution: 3.33 Å EMDB-39818: Cryo-EM structure of SARS-CoV-2 S trimer in the early fusion intermediate conformation (E-FIC) (focused refinement of S2-top) Method: EM (single particle) / Resolution: 3.92 Å 39819 8z7l EMDB-39819, PDB-8z7l: Cryo-EM structure of SARS-CoV-2 S trimer in the early fusion intermediate conformation (E-FIC) (focused refinement of S-bottom) Method: EM (single particle) / Resolution: 3.42 Å 39822 8z7p EMDB-39822, PDB-8z7p: Cryo-EM structure of SARS-CoV-2 S trimer in the early fusion intermediate conformation (E-FIC) Method: EM (single particle) / Resolution: 3.45 Å
Chemicals	ChemComp-NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose
Source	severe acute respiratory syndrome coronavirus 2 homo sapiens (human)
Keywords	VIRAL PROTEIN/HYDROLASE / Spike-ACE2 complex / VIRAL PROTEIN-HYDROLASE complex / VIRAL PROTEIN / VIRAL PROTEIN/HTDROLASE / VIRAL PROTEIN-HTDROLASE complex