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Yorodumi- PDB-1b6i: T4 LYSOZYME MUTANT WITH CYS 54 REPLACED BY THR, CYS 97 REPLACED B... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1b6i | ||||||
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Title | T4 LYSOZYME MUTANT WITH CYS 54 REPLACED BY THR, CYS 97 REPLACED BY ALA, THR 21 REPLACED BY CYS AND LYS 124 REPLACED BY CYS (C54T,C97A,T21C,K124C) | ||||||
Components | PROTEIN (LYSOZYME) | ||||||
Keywords | HYDROLASE / HYDROLASE(O-GLYCOSYL) | ||||||
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 / MOLECULAR REPLACEMENT / Resolution: 1.9 Å | ||||||
Authors | Vetter, I.R. / Baase, W.A. / Snow, S. / Matthews, B.W. | ||||||
Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 2000 Title: Solid-state synthesis and mechanical unfolding of polymers of T4 lysozyme. Authors: Yang, G. / Cecconi, C. / Baase, W.A. / Vetter, I.R. / Breyer, W.A. / Haack, J.A. / Matthews, B.W. / Dahlquist, F.W. / Bustamante, C. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1b6i.cif.gz | 45.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1b6i.ent.gz | 32.1 KB | Display | PDB format |
PDBx/mmJSON format | 1b6i.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/b6/1b6i ftp://data.pdbj.org/pub/pdb/validation_reports/b6/1b6i | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 18604.365 Da / Num. of mol.: 1 / Mutation: C54T,C97A,T21C,K124C 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 / Production host: Escherichia coli (E. coli) / References: UniProt: P00720, lysozyme |
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#2: Chemical | ChemComp-HED / |
#3: Water | ChemComp-HOH / |
Compound details | THIS LYSOZYME MUTANT CAN FORM INTERMOLECULAR DISULFIDE BRIDGES BETWEEN SYMMETRY RELATED MOLECULES ...THIS LYSOZYME MUTANT CAN FORM INTERMOLEC |
-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: 48 % | ||||||||||||||||||||||||||||||
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Crystal grow | pH: 7 / Details: pH 7.0 | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 5 ℃ / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 293 K |
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Diffraction source | Source: ROTATING ANODE / Type: OTHER / Wavelength: 1.5419 |
Detector | Detector: AREA DETECTOR / Date: Dec 15, 1994 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5419 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→29 Å / Num. obs: 14799 / % possible obs: 87.7 % / Redundancy: 2.4 % / Rmerge(I) obs: 0.074 / Net I/σ(I): 13.5 |
Reflection shell | Resolution: 1.9→2 Å / Mean I/σ(I) obs: 4.9 / % possible all: 74.2 |
Reflection shell | *PLUS % possible obs: 74.2 % |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 1.9→29 Å / Isotropic thermal model: TNT BCORREL / σ(F): 0 / Stereochemistry target values: TNT PROTGEO
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Refinement step | Cycle: LAST / Resolution: 1.9→29 Å
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Refine LS restraints |
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Software | *PLUS Name: TNT / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: t_angle_deg / Dev ideal: 2.6 |