+Open data
-Basic information
Entry | Database: PDB / ID: 1czg | ||||||
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Title | STRUCTURE OF THE G62T MUTANT OF SHIGA-LIKE TOXIN I B SUBUNIT | ||||||
Components | SHIGA TOXIN B-CHAIN | ||||||
Keywords | TOXIN / BACTERIAL TOXIN / SUGAR RECEPTOR BINDING DOMAIN / PROTEIN-CARBOHYDRATE RECOGNITION / OB-FOLD | ||||||
Function / homology | Function and homology information symbiont-mediated modulation of host virulence / hemolysis by symbiont of host erythrocytes / toxin activity / extracellular region Similarity search - Function | ||||||
Biological species | Phage h30 (virus) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.5 Å | ||||||
Authors | Ling, H. / Bast, D. / Brunton, J.L. / Read, R.J. | ||||||
Citation | Journal: To be Published Title: STRUCTURE OF THE G62T MUTANT OF SHIGA-LIKE TOXIN I B SUBUNIT Authors: Ling, H. / Bast, D. / Brunton, J.L. / Read, R.J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1czg.cif.gz | 72.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1czg.ent.gz | 59.3 KB | Display | PDB format |
PDBx/mmJSON format | 1czg.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1czg_validation.pdf.gz | 445.7 KB | Display | wwPDB validaton report |
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Full document | 1czg_full_validation.pdf.gz | 447.7 KB | Display | |
Data in XML | 1czg_validation.xml.gz | 13.3 KB | Display | |
Data in CIF | 1czg_validation.cif.gz | 18.5 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/cz/1czg ftp://data.pdbj.org/pub/pdb/validation_reports/cz/1czg | HTTPS FTP |
-Related structure data
Related structure data | |
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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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Details | HOMOPENTAMER, protein is active as pentamers. |
-Components
#1: Protein | Mass: 7742.686 Da / Num. of mol.: 5 / Fragment: SHIGA-LIKE TOXIN I BINDING DOMAIN / Mutation: G62T Source method: isolated from a genetically manipulated source Source: (gene. exp.) Phage h30 (virus) / Production host: Escherichia coli (E. coli) / References: UniProt: P69178, UniProt: P69179*PLUS #2: 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: 2.29 Å3/Da / Density % sol: 46.37 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 20% PEG4000, 10% propanol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K |
-Data collection
Diffraction | Mean temperature: 298 K |
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Diffraction source | Source: ROTATING ANODE / Type: SIEMENS / Wavelength: 1.5418 |
Detector | Type: SIEMENS / Detector: AREA DETECTOR / Date: Dec 20, 1997 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→48.7 Å / Num. all: 12849 / Num. obs: 11150 / % possible obs: 86.8 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 3.6 % / Biso Wilson estimate: 37.604 Å2 / Rmerge(I) obs: 0.085 / Net I/σ(I): 10 |
Reflection shell | Resolution: 2.5→2.54 Å / Redundancy: 1.8 % / Rmerge(I) obs: 0.193 / Num. unique all: 222 / % possible all: 50.1 |
-Processing
Software |
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Refinement | Resolution: 2.5→48.7 Å / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Engh & Huber / Details: MAXIMUM LIKELIHOOD F TARGET, WITH NCS RESTRAINTS
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Refinement step | Cycle: LAST / Resolution: 2.5→48.7 Å
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Refine LS restraints |
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