X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4
Temperature 274.0
Details 2.0 M ammonium sulfate, 0.1 M sodium acetate, pH 4

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 57.72 α = 90
b = 57.72 β = 90
c = 183.46 γ = 90
Symmetry
Space Group I 41 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2016-02-02
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.2.1 1.0000 ALS 8.2.1

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
1.7 45.9 66.9 0.092 -- -- 5.1 -- 11863 -- -- --
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)
1.7 1.73 64.3 1.997 -- 0.7 4.3 --

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 1.7 45.9 -- -- -- 11233 589 67.14 -- 0.17488 0.17182 0.23397 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 1.7 1.744 -- 47 747 0.337 0.386 -- 63.37
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.625
Anisotropic B[1][1] -0.25
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.25
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.5
RMS Deviations
Key Refinement Restraint Deviation
r_bond_other_d 0.002
r_scbond_other 4.916
r_chiral_restr 0.125
r_angle_other_deg 1.062
r_dihedral_angle_2_deg 28.324
r_long_range_B_other 6.087
r_mcbond_it 3.767
r_rigid_bond_restr 4.328
r_sphericity_bonded 10.914
r_scangle_other 6.288
r_gen_planes_refined 0.01
r_mcangle_other 4.336
r_dihedral_angle_3_deg 13.143
r_scbond_it 4.944
r_bond_refined_d 0.025
r_long_range_B_refined 6.064
r_dihedral_angle_4_deg 19.268
r_gen_planes_other 0.002
r_mcangle_it 4.308
r_sphericity_free 12.044
r_angle_refined_deg 2.523
r_dihedral_angle_1_deg 7.62
r_mcbond_other 3.593
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 924
Nucleic Acid Atoms 0
Heterogen Atoms 43
Solvent Atoms 30

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0135
XDS data reduction
Aimless data scaling
PHASER phasing