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Open data
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Basic information
Entry | Database: PDB / ID: 7xe7 | ||||||
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Title | T4 lysozyme mutant-S44C/C54T/N68C/A93C/C97A/T115C, pH10 | ||||||
![]() | Endolysin![]() | ||||||
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Function / homology | ![]() viral release from host cell by cytolysis / peptidoglycan catabolic process / cell wall macromolecule catabolic process / ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Tamada, T. / Hiromoto, T. | ||||||
Funding support | 1items
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![]() | ![]() Title: Creation of Cross-Linked Crystals With Intermolecular Disulfide Bonds Connecting Symmetry-Related Molecules Allows Retention of Tertiary Structure in Different Solvent Conditions. Authors: Hiromoto, T. / Ikura, T. / Honjo, E. / Blaber, M. / Kuroki, R. / Tamada, T. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 105.9 KB | Display | ![]() |
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PDB format | ![]() | 65.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 7xe5C ![]() 7xe6C ![]() 7xe9C ![]() 7xeaC ![]() 5vnrS C: citing same article ( S: Starting model for refinement |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | ![]() Mass: 18667.572 Da / Num. of mol.: 1 / Mutation: S44C, C54T, N68C, A93C, C97A, T115C Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() | ||||||
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#2: Chemical | ![]() #3: Chemical | ChemComp-HEZ / | ![]() #4: Water | ChemComp-HOH / | ![]() Has ligand of interest | N | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.7 Å3/Da / Density % sol: 54.44 % |
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Crystal grow![]() | Temperature: 293 K / Method: vapor diffusion Details: A crystal was soaked into precipitant-free solutions (pH10) |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 210 / Detector: CCD / Date: Jan 25, 2006 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.05→26 Å / Num. obs: 93665 / % possible obs: 98.8 % / Redundancy: 10 % / Biso Wilson estimate: 10.96 Å2 / CC1/2: 0.999 / Rrim(I) all: 0.054 / Net I/σ(I): 27 |
Reflection shell | Resolution: 1.05→1.09 Å / Redundancy: 6.4 % / Mean I/σ(I) obs: 3.1 / Num. unique obs: 8688 / CC1/2: 0.925 / Rrim(I) all: 0.401 / % possible all: 92.5 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 5VNR Resolution: 1.05→25.97 Å / SU ML: 0.0718 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 17.2155 Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.1 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 17.77 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.05→25.97 Å
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Refine LS restraints |
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LS refinement shell |
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