X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.7
Temperature 293.0
Details 6% poly(ethylene glycol) 4000, 8% glycerol, 0.1 M Mes, 30 mM CaCl2, 30 mM MgCl2 (pH 6.7)

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 105.49 α = 90
b = 158.23 β = 90
c = 182.1 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
PIXEL DECTRIS PILATUS 6M-F -- 2017-05-12
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL19U1 0.97853 SSRF BL19U1

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
3.18 120 98.7 -- -- -- 6.9 -- 50942 -- -- --
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)
3.2 3.26 -- -- -- -- -- --

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 3.18 119.44 -- -- -- 45351 2416 91.91 -- 0.19049 0.18813 0.23515 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 3.18 3.262 -- 145 2944 0.274 0.303 -- 81.7
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 60.931
Anisotropic B[1][1] 0.71
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.7
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.41
RMS Deviations
Key Refinement Restraint Deviation
r_long_range_B_other 6.707
r_scangle_other 3.158
r_mcangle_other 3.565
r_gen_planes_other 0.001
r_bond_refined_d 0.007
r_angle_refined_deg 1.258
r_chiral_restr 0.085
r_scbond_other 1.733
r_dihedral_angle_2_deg 35.675
r_mcbond_it 2.044
r_dihedral_angle_3_deg 14.321
r_dihedral_angle_4_deg 12.583
r_angle_other_deg 0.889
r_gen_planes_refined 0.004
r_mcangle_it 3.565
r_scbond_it 1.734
r_mcbond_other 2.041
r_bond_other_d 0.001
r_long_range_B_refined 6.707
r_dihedral_angle_1_deg 6.094
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 17015
Nucleic Acid Atoms 0
Heterogen Atoms 240
Solvent Atoms 0

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0135
HKL-3000 data reduction
HKL-3000 data scaling
MOLREP phasing