+Open data
-Basic information
Entry | Database: PDB / ID: 1se3 | |||||||||
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Title | STAPHYLOCOCCAL ENTEROTOXIN B COMPLEXED WITH GM3 TRISACCHARIDE | |||||||||
Components | STAPHYLOCOCCAL ENTEROTOXIN B | |||||||||
Keywords | TOXIN / SUPERANTIGEN / SEB / SIALYLLACTOSE / COMPLEX / ENTEROTOXIN | |||||||||
Function / homology | Function and homology information | |||||||||
Biological species | Staphylococcus aureus (bacteria) | |||||||||
Method | X-RAY DIFFRACTION / Resolution: 2.3 Å | |||||||||
Authors | Swaminathan, S. / Sax, M. | |||||||||
Citation | Journal: Nat.Struct.Biol. / Year: 1995 Title: Residues defining V beta specificity in staphylococcal enterotoxins. Authors: Swaminathan, S. / Furey, W. / Pletcher, J. / Sax, M. #1: Journal: Nature / Year: 1992 Title: Crystal Structure of Staphylococcal Enterotoxin B, a Superantigen Authors: Swaminathan, S. / Furey, W. / Pletcher, J. / Sax, M. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1se3.cif.gz | 62 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1se3.ent.gz | 48.4 KB | Display | PDB format |
PDBx/mmJSON format | 1se3.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1se3_validation.pdf.gz | 463.8 KB | Display | wwPDB validaton report |
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Full document | 1se3_full_validation.pdf.gz | 471.7 KB | Display | |
Data in XML | 1se3_validation.xml.gz | 7.5 KB | Display | |
Data in CIF | 1se3_validation.cif.gz | 11.3 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/se/1se3 ftp://data.pdbj.org/pub/pdb/validation_reports/se/1se3 | HTTPS FTP |
-Related 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: 28411.064 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: COMPLEXED WITH GM3 TRISACCHARIDE (3'-SIALYLLACTOSE) Source: (gene. exp.) Staphylococcus aureus (bacteria) / Cell line: S2 / Production host: Staphylococcus aureus (bacteria) / References: UniProt: P01552 |
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#2: Polysaccharide | N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-4)-beta-D-glucopyranose Source method: isolated from a genetically manipulated source |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.3 Å3/Da / Density % sol: 46 % |
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Crystal grow | pH: 8.8 / Details: 24% PEG 4000, 20 MM BORATE BUFFER AT PH 8.8. |
-Data collection
Diffraction | Mean temperature: 291 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RUH2R / Wavelength: 1.5418 |
Detector | Type: SIEMENS HI-STAR / Detector: AREA DETECTOR / Date: Feb 2, 1995 / Details: FRANKS MIRRORS |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.25→40 Å / Num. obs: 10322 / % possible obs: 83 % / Observed criterion σ(I): 0 / Redundancy: 2.8 % / Rsym value: 0.056 |
Reflection shell | Resolution: 2.25→2.5 Å / Redundancy: 1 % / % possible all: 60 |
-Processing
Software |
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Refinement | Resolution: 2.3→10 Å / Cross valid method: THROUGHOUT / σ(F): 0 Details: R VALUE GIVEN IS FOR ALL DATA AND NOT THE WORKING SET. FREE R WAS CALCULATED TO CHECK THE VALIDITY OF THE MODEL BUT THE FINAL REFINEMENT WAS DONE WITH ALL DATA.
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Refinement step | Cycle: LAST / Resolution: 2.3→10 Å
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Refine LS restraints |
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Xplor file |
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Software | *PLUS Name: X-PLOR / Version: 3.1 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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