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Yorodumi- PDB-1qtb: THE INTRODUCTION OF STRAIN AND ITS EFFECTS ON THE STRUCTURE AND S... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1qtb | ||||||
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Title | THE INTRODUCTION OF STRAIN AND ITS EFFECTS ON THE STRUCTURE AND STABILITY OF T4 LYSOZYME | ||||||
Components | LYSOZYME | ||||||
Keywords | HYDROLASE / STRAIN / STABILITY / MUTANT / T4 LYSOZYME | ||||||
Function / homology | Function and homology information viral release from host cell by cytolysis / peptidoglycan catabolic process / cell wall macromolecule catabolic process / lysozyme / lysozyme activity / host cell cytoplasm / defense response to bacterium Similarity search - Function | ||||||
Biological species | Enterobacteria phage T4 (virus) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 1.9 Å | ||||||
Authors | Liu, R. / Baase, W.A. / Matthews, B.W. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2000 Title: The introduction of strain and its effects on the structure and stability of T4 lysozyme. Authors: Liu, R. / Baase, W.A. / Matthews, B.W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1qtb.cif.gz | 46.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1qtb.ent.gz | 33 KB | Display | PDB format |
PDBx/mmJSON format | 1qtb.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1qtb_validation.pdf.gz | 422.6 KB | Display | wwPDB validaton report |
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Full document | 1qtb_full_validation.pdf.gz | 430.6 KB | Display | |
Data in XML | 1qtb_validation.xml.gz | 10.5 KB | Display | |
Data in CIF | 1qtb_validation.cif.gz | 14 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/qt/1qtb ftp://data.pdbj.org/pub/pdb/validation_reports/qt/1qtb | HTTPS FTP |
-Related structure data
Related structure data | 1qs5C 1qs9C 1qsbC 1qtcC 1qtdC 1qthC 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: 18429.156 Da / Num. of mol.: 1 / Mutation: A42V, C54T, C97A Source method: isolated from a genetically manipulated source Source: (gene. exp.) Enterobacteria phage T4 (virus) / Genus: T4-like viruses / Species: Enterobacteria phage T4 sensu lato / Plasmid: M13 PHS1403 / Production host: Escherichia coli (E. coli) / References: UniProt: P00720, lysozyme |
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#2: Chemical | ChemComp-HED / |
#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: 2.8 Å3/Da / Density % sol: 56.11 % | ||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 6.9 Details: potassium phosphate, sodium phosphate, BME, pH 6.9, VAPOR DIFFUSION, HANGING DROP, temperature 277K | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Details: seeding / PH range low: 7.1 / PH range high: 6.3 | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 298 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU / Wavelength: 1.5418 |
Detector | Type: RIGAKU RAXIS IIC / Detector: IMAGE PLATE / Date: 1998 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→46.2 Å / Num. all: 16710 / Num. obs: 16531 / % possible obs: 98.9 % / Biso Wilson estimate: 19.5 Å2 / Rmerge(I) obs: 0.081 |
Reflection shell | Resolution: 1.9→1.97 Å / Rmerge(I) obs: 0.437 / Num. unique all: 1642 / % possible all: 95.5 |
Reflection | *PLUS % possible obs: 91 % |
Reflection shell | *PLUS % possible obs: 95.5 % |
-Processing
Software |
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Refinement | Resolution: 1.9→42.2 Å / Stereochemistry target values: TNT PROTGEO /
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Refinement step | Cycle: LAST / Resolution: 1.9→42.2 Å
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Refine LS restraints |
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Software | *PLUS Name: TNT / Classification: refinement | ||||||||||||||||||
Refine LS restraints | *PLUS
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