+Open data
-Basic information
Entry | Database: PDB / ID: 8hxk | ||||||
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Title | BANAL-20-236 S1 in complex with R. Affinis ACE2 | ||||||
Components |
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Keywords | VIRAL PROTEIN / BANAL-20-236 / Bat / Spike / S1 / R. Affinis / ACE2 | ||||||
Function / homology | Function and homology information Hydrolases; Acting on peptide bonds (peptidases) / peptidyl-dipeptidase activity / carboxypeptidase activity / cilium / endocytosis involved in viral entry into host cell / metallopeptidase activity / host cell endoplasmic reticulum-Golgi intermediate compartment membrane / receptor-mediated virion attachment to host cell / fusion of virus membrane with host plasma membrane / fusion of virus membrane with host endosome membrane ...Hydrolases; Acting on peptide bonds (peptidases) / peptidyl-dipeptidase activity / carboxypeptidase activity / cilium / endocytosis involved in viral entry into host cell / metallopeptidase activity / host cell endoplasmic reticulum-Golgi intermediate compartment membrane / receptor-mediated virion attachment to host cell / fusion of virus membrane with host plasma membrane / fusion of virus membrane with host endosome membrane / viral envelope / host cell plasma membrane / virion membrane / proteolysis / extracellular region / membrane / metal ion binding / plasma membrane / cytoplasm Similarity search - Function | ||||||
Biological species | Rhinolophus affinis (intermediate horseshoe bat) unclassified Coronavirinae (virus) | ||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.8 Å | ||||||
Authors | Wang, X. / Xu, G. | ||||||
Funding support | 1items
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Citation | Journal: To Be Published Title: The selective effect of fecal-oral transmission on the S proteins of bat SARS-CoV-2 related coronaviruses in favor of stability over infectivity Authors: Wang, X. / Xu, G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 8hxk.cif.gz | 256.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb8hxk.ent.gz | 194.9 KB | Display | PDB format |
PDBx/mmJSON format | 8hxk.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/hx/8hxk ftp://data.pdbj.org/pub/pdb/validation_reports/hx/8hxk | HTTPS FTP |
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-Related structure data
Related structure data | 35079MC 8hxjC 8i3wC M: map data used to model this data C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
-Assembly
Deposited unit |
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1 |
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-Components
#1: Protein | Mass: 76340.852 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Rhinolophus affinis (intermediate horseshoe bat) Production host: Homo sapiens (human) / References: UniProt: A0A7D7J6S6 | ||||
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#2: Protein | Mass: 141914.672 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) unclassified Coronavirinae (virus) / Production host: Homo sapiens (human) / References: UniProt: A0A7D6P0R3 | ||||
#3: Polysaccharide | Source method: isolated from a genetically manipulated source #4: Sugar | ChemComp-NAG / Has ligand of interest | N | |
-Experimental details
-Experiment
Experiment | Method: ELECTRON MICROSCOPY |
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EM experiment | Aggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction |
-Sample preparation
Component | Name: BANAL-20-236 S1 in complex with R. Affinis ACE2 / Type: COMPLEX / Entity ID: #1-#2 / Source: RECOMBINANT |
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Source (natural) | Organism: unclassified Coronavirinae (virus) |
Source (recombinant) | Organism: Homo sapiens (human) |
Buffer solution | pH: 5.5 |
Specimen | Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES |
Vitrification | Cryogen name: ETHANE |
-Electron microscopy imaging
Microscopy | Model: FEI TITAN |
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Electron gun | Electron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM |
Electron lens | Mode: DARK FIELD / Nominal defocus max: 2200 nm / Nominal defocus min: 1400 nm |
Image recording | Electron dose: 60 e/Å2 / Film or detector model: GATAN K3 (6k x 4k) |
-Processing
Software | Name: UCSF ChimeraX / Version: 1.2/v9 / Classification: model building / URL: https://www.rbvi.ucsf.edu/chimerax/ / Os: Windows / Type: package |
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CTF correction | Type: NONE |
3D reconstruction | Resolution: 3.8 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 156892 / Symmetry type: POINT |