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- PDB-7ytu: Crystal structure of vaccinia virus G3/L5 sub-complex (SeMet-labe... -
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Open data
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Basic information
Entry | Database: PDB / ID: 7ytu | ||||||
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Title | Crystal structure of vaccinia virus G3/L5 sub-complex (SeMet-labeled, P31 space group) | ||||||
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![]() | VIRAL PROTEIN / the components of entry-fusion complex | ||||||
Function / homology | ![]() symbiont entry into host cell / fusion of virus membrane with host plasma membrane / viral envelope / virion membrane / membrane Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Lin, S. / Yue, D. / Lu, G.W. | ||||||
Funding support | 1items
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![]() | ![]() Title: Crystal structure of vaccinia virus G3/L5 sub-complex reveals a novel fold with extended inter-molecule interactions conserved among orthopoxviruses. Authors: Lin, S. / Yue, D. / Yang, F. / Chen, Z. / He, B. / Cao, Y. / Dong, H. / Li, J. / Zhao, Q. / Lu, G. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 66.5 KB | Display | ![]() |
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PDB format | ![]() | 50 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 436.6 KB | Display | ![]() |
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Full document | ![]() | 437.8 KB | Display | |
Data in XML | ![]() | 8.4 KB | Display | |
Data in CIF | ![]() | 11.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7yttC C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 10546.639 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: Western Reserve / Gene: VACWR079, G3L / Production host: ![]() ![]() |
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#2: Protein | Mass: 9221.222 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: Western Reserve / Gene: VACWR092, L5R / Production host: ![]() ![]() |
#3: Water | ChemComp-HOH / |
Has ligand of interest | N |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.85 Å3/Da / Density % sol: 33.48 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, sitting drop / pH: 7 Details: 0.1 M Sodium formate (pH 7.0), 12% w/v Polyethylene glycol 3350 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 S 6M / Detector: PIXEL / Date: Oct 5, 2018 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97892 Å / Relative weight: 1 |
Reflection | Resolution: 1.5→50 Å / Num. obs: 22077 / % possible obs: 99.6 % / Redundancy: 7.5 % / Rmerge(I) obs: 0.109 / Net I/σ(I): 19.46 |
Reflection shell | Resolution: 1.5→1.55 Å / Redundancy: 6.5 % / Rmerge(I) obs: 0.611 / Mean I/σ(I) obs: 2.43 / Num. unique obs: 2153 / % possible all: 96.7 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.504→31.56 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Origin x: -3.0903 Å / Origin y: -14.4565 Å / Origin z: 1.309 Å
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Refinement TLS group | Selection details: all |