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Open data
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Basic information
Entry | Database: PDB / ID: 1yl1 | ||||||
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Title | Effect of alcohols on protein hydration | ||||||
![]() | Lysozyme C | ||||||
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Function / homology | ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Deshpande, A.A. / Nimsadkar, S. / Mande, S.C. | ||||||
![]() | ![]() Title: Effect of alcohols on protein hydration: crystallographic analysis of hen egg-white lysozyme in the presence of alcohols. Authors: Deshpande, A. / Nimsadkar, S. / Mande, S.C. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 34.3 KB | Display | ![]() |
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PDB format | ![]() | 26.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 284.8 KB | Display | ![]() |
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Full document | ![]() | 286.6 KB | Display | |
Data in XML | ![]() | 8.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1ykxC ![]() 1ykyC ![]() 1ykzC ![]() 1yl0C ![]() 1z55C ![]() 2lymS C: citing same article ( S: Starting model for refinement |
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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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Unit cell |
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Components
#1: Protein | Mass: 14331.160 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() ![]() ![]() | ||
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#2: Chemical | ChemComp-NA / | ||
#3: Chemical | ![]() #4: Water | ChemComp-HOH / | ![]() |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.13 Å3/Da / Density % sol: 41.83 % |
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Crystal grow![]() | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 4.6 Details: sodium chloride, sodium acetate bufferbuffer, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 298 K |
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Diffraction source | Source: ![]() |
Detector | Type: MAR scanner 345 mm plate / Detector: IMAGE PLATE / Date: May 9, 2004 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.9→19.23 Å / Num. all: 9987 / Num. obs: 9987 / Redundancy: 1 % / Biso Wilson estimate: 23.3 Å2 / Rmerge(I) obs: 0.081 |
Reflection shell | Resolution: 1.9→1.97 Å / Redundancy: 1 % / Rmerge(I) obs: 0.116 / Num. unique all: 9481 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 2LYM Resolution: 1.9→19.23 Å / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.9→19.23 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.9→1.97 Å / Rfactor Rfree error: 0.013
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