+Open data
-Basic information
Entry | Database: PDB / ID: 1sva | ||||||
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Title | SIMIAN VIRUS 40 | ||||||
Components | SIMIAN VIRUS 40SV40 | ||||||
Keywords | VIRUS / VIRUS COAT PROTEIN / Icosahedral virus | ||||||
Function / homology | Function and homology information capsomere / caveolin-mediated endocytosis of virus by host cell / viral capsid assembly / T=7 icosahedral viral capsid / host cell endoplasmic reticulum / molecular adaptor activity / host cell nucleus / virion attachment to host cell / structural molecule activity / identical protein binding Similarity search - Function | ||||||
Biological species | Simian virus 40 | ||||||
Method | X-RAY DIFFRACTION / Resolution: 3.1 Å | ||||||
Authors | Stehle, T. / Gamblin, S.J. / Harrison, S.C. | ||||||
Citation | Journal: Structure / Year: 1996 Title: The structure of simian virus 40 refined at 3.1 A resolution. Authors: Stehle, T. / Gamblin, S.J. / Yan, Y. / Harrison, S.C. #1: Journal: Nature / Year: 1991 Title: Structure of Simian Virus 40 at 3.8-A Resolution Authors: Liddington, R.C. / Yan, Y. / Moulai, J. / Sahli, R. / Benjamin, T.L. / Harrison, S.C. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1sva.cif.gz | 395.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1sva.ent.gz | 329.6 KB | Display | PDB format |
PDBx/mmJSON format | 1sva.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/sv/1sva ftp://data.pdbj.org/pub/pdb/validation_reports/sv/1sva | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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2 |
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3 |
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4 |
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5 |
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6 |
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Unit cell |
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Symmetry | Point symmetry: (Hermann–Mauguin notation: 532 / Schoenflies symbol: I (icosahedral)) | ||||||||||||||||||
Noncrystallographic symmetry (NCS) | NCS oper:
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-Components
#1: Protein | Mass: 39818.969 Da / Num. of mol.: 6 / Source method: isolated from a natural source / Source: (natural) Simian virus 40 / Genus: PolyomavirusPolyomaviridae / References: UniProt: P03087 |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal grow | *PLUS Temperature: 25 ℃ / Method: vapor diffusion, hanging drop / PH range low: 7.5 / PH range high: 7 | ||||||||||||||||||||||||||||||
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Components of the solutions | *PLUS
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-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
Reflection | Resolution: 3.1→12 Å / Num. obs: 402347 / % possible obs: 80.2 % / Observed criterion σ(I): 0 |
Reflection | *PLUS Rmerge(I) obs: 0.097 |
Reflection shell | *PLUS Highest resolution: 3.1 Å / Lowest resolution: 3.3 Å / % possible obs: 62.6 % / Num. unique obs: 54413 / Rmerge(I) obs: 0.441 / Mean I/σ(I) obs: 1.6 |
-Processing
Software |
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Refinement | Resolution: 3.1→12 Å / σ(F): 0
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Refinement step | Cycle: LAST / Resolution: 3.1→12 Å
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Refinement | *PLUS | ||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||
Displacement parameters | *PLUS |