X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1WBIPDB ENTRY 1WBI

Crystallization

Crystal Properties
Matthews coefficientSolvent content
2.957.22

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 61.653α = 90
b = 61.653β = 90
c = 179.659γ = 90
Symmetry
Space GroupI 41 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2005-04-21MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONMAX II BEAMLINE I711MAX III711

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
12.12599.90.01148.610571-3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.12.21000.0548.7

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1WBI2.1251006650599.90.1960.1950.22RANDOM30.98
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]
1.451.45-2.89
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.51
r_dihedral_angle_4_deg21.844
r_dihedral_angle_3_deg16.219
r_dihedral_angle_1_deg6.37
r_scangle_it3.709
r_scbond_it2.329
r_mcangle_it1.948
r_angle_refined_deg1.593
r_mcbond_it1.186
r_nbtor_refined0.306
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.51
r_dihedral_angle_4_deg21.844
r_dihedral_angle_3_deg16.219
r_dihedral_angle_1_deg6.37
r_scangle_it3.709
r_scbond_it2.329
r_mcangle_it1.948
r_angle_refined_deg1.593
r_mcbond_it1.186
r_nbtor_refined0.306
r_symmetry_vdw_refined0.23
r_nbd_refined0.216
r_symmetry_hbond_refined0.168
r_xyhbond_nbd_refined0.121
r_chiral_restr0.106
r_bond_refined_d0.014
r_gen_planes_refined0.006
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms969
Nucleic Acid Atoms
Solvent Atoms61
Heterogen Atoms22

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
AMoREphasing