8A9D

Multicrystal room temperature structure of Lysozyme collected using a double multilayer monochromator.


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2LYZ 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
2LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
3LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
4LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
5LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
6LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
7LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
8LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
9LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
10LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
11LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
12LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
13LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
14LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
15LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
16LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
17LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
18LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
19LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
20LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.
21LIPIDIC CUBIC PHASE4.52931M NaCl, 0.1 Na Acetate pH 4.5, 30% (v/v) PEG 400.

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 78.485α = 90
b = 78.485β = 90
c = 38.139γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray293PIXELDECTRIS EIGER2 X 4M2022-05-09MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE VMXi0.7749DiamondVMXi

Serial Crystallography

Sample delivery method
Diffraction IDDescriptionSample Delivery Method
1fixed target

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.178.491000.5240.5430.13716.215.2739029.63
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.12.141003.263.3690.8340.2991.215.99

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE2LYZ2.155.51.34734973599.820.1990.19350.24931.32
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
RMS Deviations
KeyRefinement Restraint Deviation
f_dihedral_angle_d4.3548
f_angle_d0.3612
f_chiral_restr0.0372
f_plane_restr0.0037
f_bond_d0.0015
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms977
Nucleic Acid Atoms
Solvent Atoms72
Heterogen Atoms1

Software

Software
Software NamePurpose
PHENIXrefinement
PHENIXrefinement
xia2.multiplexdata reduction
xia2.multiplexdata scaling
PHASERphasing