+Open data
-Basic information
Entry | Database: PDB / ID: 8xj6 | ||||||
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Title | The Cryo-EM structure of MPXV E5 apo conformation | ||||||
Components | Monkeypox virus E5 | ||||||
Keywords | REPLICATION / primase / helicase | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Monkeypox virus | ||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.32 Å | ||||||
Authors | Zhang, W. / Liu, Y. / Gao, H. / Gan, J. | ||||||
Funding support | China, 1items
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Citation | Journal: Cell Discov / Year: 2024 Title: Structural and functional insights into the helicase protein E5 of Mpox virus. Authors: Gan, J. / Zhang, W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 8xj6.cif.gz | 516.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb8xj6.ent.gz | 417.1 KB | Display | PDB format |
PDBx/mmJSON format | 8xj6.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/xj/8xj6 ftp://data.pdbj.org/pub/pdb/validation_reports/xj/8xj6 | HTTPS FTP |
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-Related structure data
Related structure data | 38394MC 8xifC 8xigC 8xj7C 8xj8C 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: 90476.344 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Monkeypox virus / Gene: E5R / Production host: Escherichia coli (E. coli) / References: UniProt: Q5IXS3 #2: Chemical | #3: Chemical | #4: Chemical | Has ligand of interest | Y | |
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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: Monkeypox virus / Type: VIRUS / Entity ID: #1 / Source: RECOMBINANT |
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Source (natural) | Organism: Monkeypox virus |
Source (recombinant) | Organism: Escherichia coli (E. coli) |
Details of virus | Empty: YES / Enveloped: YES / Isolate: SPECIES / Type: VIRION |
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 FIELDBright-field microscopy / Nominal defocus max: 2000 nm / Nominal defocus min: 1000 nm |
Image recording | Electron dose: 50 e/Å2 / Film or detector model: GATAN K3 (6k x 4k) |
-Processing
EM software | Name: PHENIX / Version: 1.19.1_4122: / Category: model refinement | ||||||||||||||||||||||||
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CTF correction | Type: NONE | ||||||||||||||||||||||||
3D reconstruction | Resolution: 3.32 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 60606 / Symmetry type: POINT | ||||||||||||||||||||||||
Refine LS restraints |
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