7RYD

Hen egg-white lysozyme with ionic liquid butylammonium nitrate 1 mol%


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 7JMU 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1MICROBATCH8298.15butylammonium nitrate 1 mol% (ca. 7wt%) in water
Crystal Properties
Matthews coefficientSolvent content
1.831.67

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 27.64α = 90
b = 62.45β = 90.21
c = 59.78γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER X 16M2020-02-06MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAUSTRALIAN SYNCHROTRON BEAMLINE MX20.95372Australian SynchrotronMX2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)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
11.1843.1899.80.9925.46.267030
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.181.299.60.0361.1

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT7JMU1.1817.0959883310093.680.199080.2299414.338
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]
0.36-0.069-0.359
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg28.889
r_dihedral_angle_4_deg19.077
r_dihedral_angle_3_deg12.747
r_dihedral_angle_1_deg6.931
r_scangle_it3.726
r_lrange_it3.708
r_lrange_other3.645
r_scangle_other3.633
r_scbond_it3.093
r_scbond_other2.995
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg28.889
r_dihedral_angle_4_deg19.077
r_dihedral_angle_3_deg12.747
r_dihedral_angle_1_deg6.931
r_scangle_it3.726
r_lrange_it3.708
r_lrange_other3.645
r_scangle_other3.633
r_scbond_it3.093
r_scbond_other2.995
r_rigid_bond_restr2.932
r_mcangle_other2.579
r_mcangle_it2.577
r_mcbond_it2.196
r_mcbond_other2.171
r_angle_refined_deg1.893
r_angle_other_deg1.657
r_nbd_other0.239
r_nbd_refined0.228
r_symmetry_nbd_other0.196
r_symmetry_xyhbond_nbd_refined0.193
r_symmetry_nbd_refined0.176
r_nbtor_refined0.174
r_xyhbond_nbd_refined0.16
r_chiral_restr0.106
r_symmetry_nbtor_other0.089
r_symmetry_xyhbond_nbd_other0.061
r_bond_refined_d0.014
r_gen_planes_refined0.01
r_gen_planes_other0.002
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2000
Nucleic Acid Atoms
Solvent Atoms173
Heterogen Atoms48

Software

Software
Software NamePurpose
REFMACrefinement
iMOSFLMdata reduction
Aimlessdata scaling
PHASERphasing