X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 5.5
Temperature 293.0
Details 25% PEG3350, 200 mM sodium chloride, 100 mM Bis-Tris-HCl, pH 5.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 174.58 α = 90
b = 205.37 β = 90
c = 222.26 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2015-05-16
Diffraction Radiation
Monochromator Protocol
double crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-ID 1.0 APS 22-ID

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
3.9 50 98.8 -- -- -- 6.6 -- 64141 -- -- --
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)
3.9 -- -- -- -- -- -- --

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 3.92 50.01 -- -- -- 64141 3422 93.72 -- 0.28842 0.28626 0.32926 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 3.924 4.025 -- 160 2682 0.345 0.352 -- 54.26
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 60.359
Anisotropic B[1][1] -0.03
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.53
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.5
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 13.02
r_scbond_it 5.231
r_dihedral_angle_2_deg 33.658
r_bond_other_d 0.002
r_angle_refined_deg 1.607
r_mcangle_it 11.501
r_scbond_other 5.231
r_mcangle_other 11.501
r_bond_refined_d 0.012
r_long_range_B_other 15.806
r_angle_other_deg 2.475
r_dihedral_angle_1_deg 6.41
r_dihedral_angle_3_deg 16.491
r_mcbond_other 6.64
r_gen_planes_other 0.004
r_long_range_B_refined 15.806
r_mcbond_it 6.639
r_gen_planes_refined 0.005
r_scangle_other 9.44
r_chiral_restr 0.103
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 43163
Nucleic Acid Atoms 0
Heterogen Atoms 861
Solvent Atoms 0

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0158
HKL-2000 data reduction
HKL-2000 data scaling
PHASER phasing