X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4.52985 uL of 0.6 M Sodium Chloride in 100 mM Sodium Acetate buffer pH 4.5 and 25% ethylene glycol were mixed with 5 uL 100 mg/mL lysozyme in 100 mM Sodium Acetate.
Crystal Properties
Matthews coefficientSolvent content
1.9135.5

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 76.909α = 90
b = 76.909β = 90
c = 36.961γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray220PIXELDECTRIS EIGER X 16M2020-01-19MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL14-11.7462SSRLBL14-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)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
11.938.48499.90.0460.0150.99937.215.6921130.8
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.91.9498.20.2510.1020.9928.511.6

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONSADFREE R-VALUE1.938.484917747599.8260.1580.1560.191325.788
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]
-0.006-0.0060.011
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg16.787
r_dihedral_angle_3_deg14.036
r_dihedral_angle_2_deg11.696
r_dihedral_angle_1_deg6.782
r_lrange_other6.751
r_lrange_it6.746
r_scangle_it5.835
r_scangle_other5.831
r_scbond_it4.338
r_scbond_other4.334
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg16.787
r_dihedral_angle_3_deg14.036
r_dihedral_angle_2_deg11.696
r_dihedral_angle_1_deg6.782
r_lrange_other6.751
r_lrange_it6.746
r_scangle_it5.835
r_scangle_other5.831
r_scbond_it4.338
r_scbond_other4.334
r_mcangle_other3.949
r_mcangle_it3.93
r_mcbond_it3.44
r_mcbond_other3.389
r_angle_refined_deg1.633
r_angle_other_deg0.592
r_xyhbond_nbd_refined0.384
r_symmetry_xyhbond_nbd_refined0.335
r_nbd_refined0.244
r_metal_ion_refined0.205
r_symmetry_nbd_other0.204
r_symmetry_nbd_refined0.191
r_nbtor_refined0.182
r_nbd_other0.147
r_chiral_restr0.089
r_symmetry_nbtor_other0.081
r_xyhbond_nbd_other0.048
r_gen_planes_refined0.01
r_bond_refined_d0.009
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1001
Nucleic Acid Atoms
Solvent Atoms84
Heterogen Atoms16

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
SHELXDEphasing