1YIK

Structure of Hen egg white lysozyme soaked with Cu-cyclam


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION4.5277Acetate buffer, NaCl, pH 4.5, VAPOR DIFFUSION, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
238.47

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 77.906α = 90
b = 77.906β = 90
c = 37.762γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 42004-02-26MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSRS BEAMLINE PX14.20.97950SRSPX14.2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)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
11.7555.0599.9818711223422
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
1.751.84100

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Cut-off Sigma (F)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1.75552122341161958499.80.178390.178390.175650.23314RANDOM19.552
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]
0.20.2-0.39
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.082
r_dihedral_angle_4_deg19.248
r_dihedral_angle_3_deg13.273
r_dihedral_angle_1_deg6.055
r_scangle_it3.885
r_scbond_it2.531
r_mcangle_it1.633
r_angle_refined_deg1.577
r_mcbond_it0.939
r_nbtor_refined0.297
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.082
r_dihedral_angle_4_deg19.248
r_dihedral_angle_3_deg13.273
r_dihedral_angle_1_deg6.055
r_scangle_it3.885
r_scbond_it2.531
r_mcangle_it1.633
r_angle_refined_deg1.577
r_mcbond_it0.939
r_nbtor_refined0.297
r_nbd_refined0.224
r_symmetry_vdw_refined0.217
r_symmetry_hbond_refined0.164
r_xyhbond_nbd_refined0.155
r_metal_ion_refined0.123
r_chiral_restr0.113
r_bond_refined_d0.015
r_gen_planes_refined0.007
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1016
Nucleic Acid Atoms
Solvent Atoms169
Heterogen Atoms45

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
CCP4data scaling
MOLREPphasing