+Open data
-Basic information
Entry | Database: PDB / ID: 3d26 | ||||||||||||
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Title | Norwalk P domain A-trisaccharide complex | ||||||||||||
Components | 58 kd capsid protein | ||||||||||||
Keywords | VIRAL PROTEIN / Norwalk P domain A trisaccaride complex | ||||||||||||
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: 2.3 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 |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3d26.cif.gz | 112.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3d26.ent.gz | 82.9 KB | Display | PDB format |
PDBx/mmJSON format | 3d26.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/d2/3d26 ftp://data.pdbj.org/pub/pdb/validation_reports/d2/3d26 | HTTPS FTP |
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-Related structure data
Related structure data | 3bqjC 3by1C 3by2C 1ihmS S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 32099.010 Da / Num. of mol.: 2 / Fragment: UNP residues 230-530 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Norwalk virus / Production host: Escherichia coli (E. coli) / References: UniProt: Q83884 #2: Polysaccharide | Source method: isolated from a genetically manipulated source #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.52 Å3/Da / Density % sol: 51.29 % |
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Crystal grow | Temperature: 295 K / Method: vapor diffusion, hanging drop / pH: 4.5 Details: 13% (w/v) PEG 4000, 0.2 M (NH4)2SO4, 0. 1 M NaOAc, pH 4.50, VAPOR DIFFUSION, HANGING DROP, temperature 295K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RUH3R / Wavelength: 1.5418 |
Detector | Type: RIGAKU RAXIS IV++ / Detector: IMAGE PLATE / Date: Oct 29, 2007 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.3→50 Å / Num. obs: 23678 / Redundancy: 3.8 % / Rsym value: 0.039 |
Reflection shell | Highest resolution: 2.3 Å |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1IHM Resolution: 2.3→50 Å
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Refinement step | Cycle: LAST / Resolution: 2.3→50 Å
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