X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 291.0
Details 50 mM sodium cacodylate (pH 6.5) and 0.7 M sodium acetate.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 137.18 α = 90
b = 37.51 β = 121.65
c = 93.86 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 300 mm plate -- 2016-03-10
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-G 0.97856 APS 21-ID-G

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
1.95 80 99.9 0.09 -- -- 5.1 -- 30154 -- -- --
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)
1.95 2.02 99.6 0.46 -- -- 4.2 --

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 1.95 79.9 -- -- -- 28679 1472 99.8 -- 0.16813 0.16564 0.21694 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 1.949 2.0 -- 100 2058 0.226 0.302 -- 98.27
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.188
Anisotropic B[1][1] -0.23
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.45
Anisotropic B[2][2] 0.76
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.01
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_other 2.223
r_scangle_other 4.664
r_bond_refined_d 0.018
r_angle_refined_deg 1.38
r_chiral_restr 0.15
r_dihedral_angle_1_deg 7.301
r_gen_planes_refined 0.012
r_scbond_other 3.013
r_dihedral_angle_4_deg 18.827
r_gen_planes_other 0.002
r_scbond_it 3.014
r_dihedral_angle_2_deg 35.34
r_mcbond_it 2.258
r_mcangle_other 3.262
r_long_range_B_other 6.483
r_long_range_B_refined 6.585
r_bond_other_d 0.003
r_dihedral_angle_3_deg 16.024
r_mcangle_it 3.258
r_angle_other_deg 1.905
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2182
Nucleic Acid Atoms 494
Heterogen Atoms 70
Solvent Atoms 214

Software

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