+Open data
-Basic information
Entry | Database: PDB / ID: 3by2 | ||||||
---|---|---|---|---|---|---|---|
Title | Norwalk P polypeptide (228-523) | ||||||
Components | 58 kd capsid protein | ||||||
Keywords | VIRAL PROTEIN / Norwalk Virus P polypeptide | ||||||
Function / homology | Function and homology information T=3 icosahedral viral capsid / host cell cytoplasm / identical protein binding Similarity search - Function | ||||||
Biological species | Norwalk virus | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 2.6 Å | ||||||
Authors | Hegde, R. / Bu, W. | ||||||
Citation | Journal: J.Virol. / Year: 2008 Title: Structural basis for the receptor binding specificity of Norwalk virus. Authors: Bu, W. / Mamedova, A. / Tan, M. / Xia, M. / Jiang, X. / Hegde, R.S. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 3by2.cif.gz | 66.9 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb3by2.ent.gz | 48.5 KB | Display | PDB format |
PDBx/mmJSON format | 3by2.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/by/3by2 ftp://data.pdbj.org/pub/pdb/validation_reports/by/3by2 | HTTPS FTP |
---|
-Related structure data
Related structure data | 3bqjC 3by1C 3d26C 1ihmS S: Starting model for refinement C: citing same article (ref.) |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
2 |
| ||||||||
Unit cell |
|
-Components
#1: Protein | Mass: 32528.453 Da / Num. of mol.: 1 / Fragment: UNP residues 218-522 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Norwalk virus / Genus: Norovirus / Production host: Escherichia coli (E. coli) / References: UniProt: Q83884 |
---|---|
#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 2.72 Å3/Da / Density % sol: 54.86 % |
---|
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RUH3R / Wavelength: 1.5418 Å |
Detector | Type: RIGAKU RAXIS IV++ / Detector: IMAGE PLATE |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.6→50 Å / Num. all: 8335 / Num. obs: 8083 / Redundancy: 1.9 % / Rsym value: 0.055 |
-Processing
Software |
| |||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1ihm Resolution: 2.6→50 Å / Cross valid method: procheck
| |||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.6→50 Å
|