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Open data
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Basic information
Entry | Database: PDB / ID: 2yhj | ||||||
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Title | Clostridium perfringens Enterotoxin at 4.0 Angstrom Resolution | ||||||
![]() | HEAT-LABILE ENTEROTOXIN B CHAIN | ||||||
![]() | TOXIN / PORE-FORMING TOXIN / FOOD-POISONING / ANTIBIOTIC-ASSOCIATED DIARRHOEA | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Briggs, D.C. / Naylor, C.E. / Smedley III, J.G. / McClane, B.A. / Basak, A.K. | ||||||
![]() | ![]() Title: Structure of the Food-Poisoning Clostridium Perfringens Enterotoxin Reveals Similarity to the Aerolysin-Like Pore-Forming Toxins Authors: Briggs, D.C. / Naylor, C.E. / Smedley III, J.G. / Lukoyanova, N. / Robertson, S. / Mcclane, B.A. / Basak, A.K. #1: Journal: Acta Crystallogr.,Sect.F / Year: 2010 Title: Crystallization and Preliminary Crystallographic Analysis of the Clostridium Perfringens Enterotoxin. Authors: Briggs, D.C. / Smedley III, J.G. / Mcclane, B.A. / Basak, A.K. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 121.3 KB | Display | ![]() |
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PDB format | ![]() | 95.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 423.9 KB | Display | ![]() |
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Full document | ![]() | 426.2 KB | Display | |
Data in XML | ![]() | 20.4 KB | Display | |
Data in CIF | ![]() | 27 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2xh6SC S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (-0.00405, -0.99991, 0.01284), Vector: |
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Components
#1: Protein | Mass: 35345.207 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.8 Å3/Da / Density % sol: 75 % / Description: NONE |
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Crystal grow | pH: 4.3 Details: 10 MG/ML PROTEIN IN WATER EQUILIBRATED AGAINST 2.0 M HEXANE-1,2-DIOL AND 10 MM ZNCL2 IN 50 MM CITRATE, PH 4.3 . |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD / Date: Jul 2, 2003 / Details: MIRRORS |
Radiation | Monochromator: SI CRYSTAL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.2823 Å / Relative weight: 1 |
Reflection | Resolution: 4→70 Å / Num. obs: 11712 / % possible obs: 99.9 % / Observed criterion σ(I): -3 / Redundancy: 10 % / Biso Wilson estimate: 85.23 Å2 / Rmerge(I) obs: 0.17 / Net I/σ(I): 16.7 |
Reflection shell | Resolution: 4→4.2 Å / Redundancy: 7.4 % / Rmerge(I) obs: 0.62 / Mean I/σ(I) obs: 3.2 / % possible all: 99.5 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 2XH6, CHAIN A Resolution: 4→65.2 Å / Cor.coef. Fo:Fc: 0.8563 / Cor.coef. Fo:Fc free: 0.7484 / Cross valid method: THROUGHOUT / σ(F): 0 / Details: THERE IS NO ELECTRON DENSITY FOR RESIDUES 1-34
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Displacement parameters | Biso mean: 115.4 Å2
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Refine analyze | Luzzati coordinate error obs: 1.025 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 4→65.2 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 4→4.38 Å / Total num. of bins used: 6
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