X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details 100MM TRIS 7.5, 9MM ZNSO4, 26% PEG550, pH 7.50

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 93.49 α = 90
b = 93.49 β = 90
c = 53.72 γ = 90
Symmetry
Space Group P 41

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD TOROIDAL MIRROR 2001-06-15
Diffraction Radiation
Monochromator Protocol
DIAMOND (111), GE(220) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-2 -- ESRF ID14-2

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
1.65 20 100.0 0.066 -- -- 4.7 -- 54188 -- -- --
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)
1.65 1.71 99.0 0.264 -- 9.3 4.9 --

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
MOLECULAR REPLACEMENT 1.65 20.0 -- -- -- 51895 2778 98.1 -- 0.14 0.138 0.167 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 1.65 1.7 -- 184 3759 0.123 0.181 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.08
Anisotropic B[1][1] -0.61
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.61
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.22
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.007
r_bond_other_d 0.002
r_metal_ion_refined 0.15
r_symmetry_vdw_refined 0.197
r_scbond_it 2.47
r_dihedral_angle_1_deg 5.856
r_gen_planes_other 0.004
r_nbd_refined 0.211
r_nbtor_other 0.082
r_symmetry_hbond_refined 0.126
r_angle_other_deg 0.857
r_scangle_it 3.669
r_chiral_restr 0.088
r_sphericity_bonded 2.538
r_xyhbond_nbd_refined 0.14
r_bond_refined_d 0.011
r_symmetry_vdw_other 0.259
r_angle_refined_deg 1.347
r_mcangle_it 2.974
r_sphericity_free 2.947
r_mcbond_it 2.082
r_rigid_bond_restr 1.385
r_nbd_other 0.245
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3009
Nucleic Acid Atoms 0
Heterogen Atoms 76
Solvent Atoms 379

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.19
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing