X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 7.4
Temperature 293.0
Details PEG, pH 7.4, VAPOR DIFFUSION, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 57.26 α = 105.6
b = 62.69 β = 93.22
c = 68.24 γ = 115.55
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL PSI PILATUS 6M LN2 cooled fixed-exit 2007-10-28
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA 1.0000 SLS X06SA

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
1.27 44.28 85.6 0.034 -- -- 1.5 182842 182842 0.0 0.0 --
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
1.27 1.33 65.8 0.098 -- -- 0.4 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
FOURIER SYNTHESIS 1.27 44.28 -- -- -- 173697 9143 100.0 0.11672 0.11812 0.11632 0.15237 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 1.27 1.303 -- 448 8499 0.159 0.206 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 12.158
Anisotropic B[1][1] -0.34
Anisotropic B[1][2] -0.25
Anisotropic B[1][3] -0.05
Anisotropic B[2][2] 0.26
Anisotropic B[2][3] -0.6
Anisotropic B[3][3] -0.46
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.355
r_scangle_it 5.842
r_dihedral_angle_2_deg 36.701
r_gen_planes_other 0.002
r_nbtor_refined 0.185
r_dihedral_angle_1_deg 5.89
r_gen_planes_refined 0.006
r_nbd_refined 0.229
r_mcbond_it 3.102
r_scbond_it 4.779
r_mcangle_it 3.528
r_mcbond_other 1.798
r_sphericity_free 12.266
r_nbtor_other 0.086
r_dihedral_angle_4_deg 11.519
r_bond_refined_d 0.011
r_nbd_other 0.19
r_rigid_bond_restr 2.449
r_dihedral_angle_3_deg 11.187
r_angle_other_deg 0.81
r_chiral_restr 0.089
r_xyhbond_nbd_refined 0.204
r_bond_other_d 0.001
r_sphericity_bonded 6.143
r_symmetry_vdw_refined 0.189
r_symmetry_vdw_other 0.269
r_symmetry_hbond_refined 0.369
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6695
Nucleic Acid Atoms 0
Heterogen Atoms 145
Solvent Atoms 993

Software

Software
Software Name Purpose
XDL data collection
MOLREP phasing
REFMAC refinement version: 5.2.0005
XDS data reduction
XSCALE data scaling