+Open data
-Basic information
Entry | Database: PDB / ID: 8y3o | ||||||
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Title | ASFV p72 in complex with Fab B1 | ||||||
Components |
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Keywords | VIRAL PROTEIN/IMMUNE SYSTEM / ASFV / P72 / antibody / VIRAL PROTEIN / VIRAL PROTEIN-IMMUNE SYSTEM complex | ||||||
Function / homology | Major capsid protein, C-terminal / Major capsid protein, C-terminal domain superfamily / Large eukaryotic DNA virus major capsid protein / Group II dsDNA virus coat/capsid protein / viral capsid / structural molecule activity / B646L Function and homology information | ||||||
Biological species | African swine fever virus Sus scrofa (pig) | ||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 2.75 Å | ||||||
Authors | Wang, X. / Fu, W. / Yu, Q. | ||||||
Funding support | 1items
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Citation | Journal: Cell Discov / Year: 2024 Title: p72 antigenic mapping reveals a potential supersite of vulnerability for African swine fever virus. Authors: Qi Yu / Dening Liang / Wangjun Fu / Li Zhang / Jinglin Wang / Zhenjiang Zhang / Yao Sun / Dandan Zhu / BinYang Zheng / Ling Zhu / Ye Xiang / Dongming Zhao / Xiangxi Wang / | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 8y3o.cif.gz | 394.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb8y3o.ent.gz | Display | PDB format | |
PDBx/mmJSON format | 8y3o.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 8y3o_validation.pdf.gz | 1.3 MB | Display | wwPDB validaton report |
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Full document | 8y3o_full_validation.pdf.gz | 1.4 MB | Display | |
Data in XML | 8y3o_validation.xml.gz | 65 KB | Display | |
Data in CIF | 8y3o_validation.cif.gz | 96.3 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/y3/8y3o ftp://data.pdbj.org/pub/pdb/validation_reports/y3/8y3o | HTTPS FTP |
-Related structure data
Related structure data | 38893MC 8y3pC 8y3qC 8y3rC 8zl9C 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: 78930.531 Da / Num. of mol.: 3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) African swine fever virus / Gene: p72, B646L, B646L CDS, ASFV-Georgia_4-106 / Production host: Homo sapiens (human) / References: UniProt: Q5IZK2 #2: Antibody | Mass: 12302.654 Da / Num. of mol.: 3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Sus scrofa (pig) / Production host: Sus scrofa (pig) #3: Antibody | Mass: 12966.524 Da / Num. of mol.: 3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Sus scrofa (pig) / Production host: Sus scrofa (pig) |
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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: ASFV p72 in complex with Fab B1 / Type: COMPLEX / Entity ID: #2-#3 / Source: RECOMBINANT | ||||||||||||
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Source (natural) |
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Source (recombinant) |
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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: DARK FIELD / Nominal defocus max: 1800 nm / Nominal defocus min: 1200 nm |
Image recording | Electron dose: 60 e/Å2 / Film or detector model: GATAN K2 QUANTUM (4k x 4k) |
-Processing
CTF correction | Type: NONE | ||||||||||||||||||||||||
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3D reconstruction | Resolution: 2.75 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 210044 / Symmetry type: POINT | ||||||||||||||||||||||||
Refine LS restraints |
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