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Yorodumi- PDB-8qk3: Human Adenovirus type 11 fiber knob in complex with its cell rece... -
+Open data
-Basic information
Entry | Database: PDB / ID: 8qk3 | ||||||
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Title | Human Adenovirus type 11 fiber knob in complex with its cell receptors, Desmoglein-2 and CD46 | ||||||
Components |
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Keywords | VIRAL PROTEIN / adenovirus / cell entry / receptor binding | ||||||
Function / homology | Function and homology information sequestering of extracellular ligand from receptor / inner acrosomal membrane / Purkinje myocyte development / bundle of His cell-Purkinje myocyte adhesion involved in cell communication / cell adhesive protein binding involved in bundle of His cell-Purkinje myocyte communication / desmosome organization / Keratinization / regulation of Notch signaling pathway / desmosome / negative regulation of complement activation, classical pathway ...sequestering of extracellular ligand from receptor / inner acrosomal membrane / Purkinje myocyte development / bundle of His cell-Purkinje myocyte adhesion involved in cell communication / cell adhesive protein binding involved in bundle of His cell-Purkinje myocyte communication / desmosome organization / Keratinization / regulation of Notch signaling pathway / desmosome / negative regulation of complement activation, classical pathway / positive regulation of transforming growth factor beta production / T cell mediated immunity / Formation of the cornified envelope / cornified envelope / regulation of ventricular cardiac muscle cell action potential / positive regulation of memory T cell differentiation / positive regulation of regulatory T cell differentiation / Apoptotic cleavage of cell adhesion proteins / adhesion receptor-mediated virion attachment to host cell / regulation of heart rate by cardiac conduction / homophilic cell adhesion via plasma membrane adhesion molecules / positive regulation of interleukin-10 production / intercalated disc / RHOG GTPase cycle / lateral plasma membrane / single fertilization / RAC2 GTPase cycle / RAC3 GTPase cycle / maternal process involved in female pregnancy / positive regulation of T cell proliferation / cell adhesion molecule binding / complement activation, classical pathway / Regulation of Complement cascade / response to progesterone / cell-cell adhesion / viral capsid / cell-cell junction / cell junction / virus receptor activity / signaling receptor activity / adaptive immune response / cell adhesion / cadherin binding / symbiont entry into host cell / apical plasma membrane / negative regulation of gene expression / intracellular membrane-bounded organelle / innate immune response / focal adhesion / calcium ion binding / host cell nucleus / positive regulation of gene expression / cell surface / extracellular space / extracellular exosome / plasma membrane Similarity search - Function | ||||||
Biological species | Human adenovirus 11 Homo sapiens (human) | ||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.2 Å | ||||||
Authors | Effantin, G. | ||||||
Funding support | France, 1items
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Citation | Journal: J Virol / Year: 2023 Title: Toward the understanding of DSG2 and CD46 interaction with HAdV-11 fiber, a super-complex analysis. Authors: Gregory Effantin / Marc-André Hograindleur / Daphna Fenel / Pascal Fender / Emilie Vassal-Stermann / Abstract: The main limitation of oncolytic vectors is neutralization by blood components, which prevents intratumoral administration to patients. Enadenotucirev, a chimeric HAdV-11p/HAdV-3 adenovirus ...The main limitation of oncolytic vectors is neutralization by blood components, which prevents intratumoral administration to patients. Enadenotucirev, a chimeric HAdV-11p/HAdV-3 adenovirus identified by bio-selection, is a low seroprevalence vector active against a broad range of human carcinoma cell lines. At this stage, there's still some uncertainty about tropism and primary receptor utilization by HAdV-11. However, this information is very important, as it has a direct influence on the effectiveness of HAdV-11-based vectors. The aim of this work is to determine which of the two receptors, DSG2 and CD46, is involved in the attachment of the virus to the host, and what role they play in the early stages of infection. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 8qk3.cif.gz | 224.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb8qk3.ent.gz | 160.2 KB | Display | PDB format |
PDBx/mmJSON format | 8qk3.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 8qk3_validation.pdf.gz | 1.2 MB | Display | wwPDB validaton report |
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Full document | 8qk3_full_validation.pdf.gz | 1.2 MB | Display | |
Data in XML | 8qk3_validation.xml.gz | 38.2 KB | Display | |
Data in CIF | 8qk3_validation.cif.gz | 57.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/qk/8qk3 ftp://data.pdbj.org/pub/pdb/validation_reports/qk/8qk3 | HTTPS FTP |
-Related structure data
Related structure data | 18455MC 8qjxC 8qjyC C: citing same article (ref.) M: map data used to model this data |
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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: 35564.773 Da / Num. of mol.: 3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Human adenovirus 11 / Gene: L5 / Production host: Escherichia coli (E. coli) / References: UniProt: P35774 #2: Protein | | Mass: 43795.164 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: CD46 / Production host: Escherichia coli (E. coli) / References: UniProt: P15529 #3: Protein | | Mass: 122421.633 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: DSG2 / Production host: Escherichia coli (E. coli) / References: UniProt: Q14126 |
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-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: Complex between the human adenovirus 11 fiber knob, the human desmoglein 2 (domains ec2/ec3) and the human CD46 (domains SCR1 and SCR2) Type: COMPLEX / Entity ID: all / Source: RECOMBINANT |
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Molecular weight | Experimental value: NO |
Source (natural) | Organism: Escherichia coli (E. coli) |
Source (recombinant) | Organism: Escherichia coli (E. coli) |
Buffer solution | pH: 8 |
Specimen | Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES |
Vitrification | Cryogen name: ETHANE |
-Electron microscopy imaging
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
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Microscopy | Model: FEI TITAN KRIOS |
Electron gun | Electron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM |
Electron lens | Mode: BRIGHT FIELD / Nominal defocus max: 2500 nm / Nominal defocus min: 1000 nm |
Image recording | Electron dose: 58 e/Å2 / Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) |
-Processing
CTF correction | Type: PHASE FLIPPING AND AMPLITUDE CORRECTION | ||||||||||||||||||||||||
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3D reconstruction | Resolution: 3.2 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 180510 / Symmetry type: POINT | ||||||||||||||||||||||||
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