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Yorodumi- PDB-8tqi: Hemagglutinin-neuraminidase from Human parainfluenza virus type 3... -
+Open data
-Basic information
Entry | Database: PDB / ID: 8tqi | ||||||
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Title | Hemagglutinin-neuraminidase from Human parainfluenza virus type 3: complex with rPIV3-23 and rPIV3-28 Fabs | ||||||
Components |
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Keywords | VIRAL PROTEIN/IMMUNE SYSTEM / Immune system / viral neutralization / VIRAL PROTEIN / VIRAL PROTEIN-IMMUNE SYSTEM complex | ||||||
Function / homology | Function and homology information exo-alpha-(2->3)-sialidase activity / exo-alpha-(2->6)-sialidase activity / exo-alpha-(2->8)-sialidase activity / exo-alpha-sialidase / host cell surface receptor binding / symbiont entry into host cell / viral envelope / virion attachment to host cell / host cell plasma membrane / virion membrane / membrane Similarity search - Function | ||||||
Biological species | Human respirovirus 3 Homo sapiens (human) | ||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.24 Å | ||||||
Authors | Otrelo-Cardoso, A.R. / Jardetzky, T.S. | ||||||
Funding support | United States, 1items
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Citation | Journal: To Be Published Title: Functional and structural characteristics of human monoclonal antibodies that potently neutralize human parainfluenza virus type 3 Authors: Suryadevara, N. / Otrelo-Cardoso, A.R. / Kose, N. / Hu, Y.X. / Binshtein, E. / Wolters, R. / Drew-Bear, J. / Handal, L.S. / Carnahan, R.H. / Moscona, A. / Jardetzky, T.S. / Crowe Jr, J.E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 8tqi.cif.gz | 622.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb8tqi.ent.gz | 507.9 KB | Display | PDB format |
PDBx/mmJSON format | 8tqi.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 8tqi_validation.pdf.gz | 1.3 MB | Display | wwPDB validaton report |
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Full document | 8tqi_full_validation.pdf.gz | 1.3 MB | Display | |
Data in XML | 8tqi_validation.xml.gz | 56.6 KB | Display | |
Data in CIF | 8tqi_validation.cif.gz | 86.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/tq/8tqi ftp://data.pdbj.org/pub/pdb/validation_reports/tq/8tqi | HTTPS FTP |
-Related structure data
Related structure data | 41505MC 8tqkC 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: 50774.414 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Human respirovirus 3 / Gene: HN / Cell line (production host): HEK / Production host: Homo sapiens (human) / Strain (production host): 293 6e / References: UniProt: P08492 #2: Antibody | Mass: 23344.152 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Cell line (production host): CHO / Production host: Cricetulus griseus (Chinese hamster) #3: Antibody | Mass: 23592.119 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Production host: Cricetulus griseus (Chinese hamster) #4: Antibody | Mass: 24952.980 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Production host: Cricetulus griseus (Chinese hamster) #5: Antibody | Mass: 23309.943 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Production host: Cricetulus griseus (Chinese hamster) |
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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 |
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Molecular weight |
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Source (natural) |
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Source (recombinant) |
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Buffer solution | pH: 7.4 | |||||||||||||||||||||||||||||||||||
Specimen | Conc.: 2 mg/ml / Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES | |||||||||||||||||||||||||||||||||||
Vitrification | Instrument: FEI VITROBOT MARK IV / Cryogen name: ETHANE / Humidity: 100 % / Chamber temperature: 277.15 K |
-Electron microscopy imaging
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
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Microscopy | Model: TFS KRIOS |
Electron gun | Electron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM |
Electron lens | Mode: BRIGHT FIELD / Nominal defocus max: 3000 nm / Nominal defocus min: 1000 nm / Cs: 2.7 mm |
Specimen holder | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER |
Image recording | Electron dose: 50 e/Å2 / Film or detector model: FEI FALCON IV (4k x 4k) |
-Processing
Software | Name: PHENIX / Version: 1.20.1_4487: / Classification: refinement | |||||||||||||||
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EM software |
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CTF correction | Type: PHASE FLIPPING AND AMPLITUDE CORRECTION | |||||||||||||||
3D reconstruction | Resolution: 3.24 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 47827 / Symmetry type: POINT |