X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 291.0
Details 0.2 M magnesium formate, 20% polyethylene (PEG) 3350, pH 7.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 36.42 α = 90
b = 96.96 β = 90
c = 187.86 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 Pilatus 6M fast -- 2015-07-24
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PETRA III, DESY BEAMLINE P11 0.9919 PETRA III, DESY P11

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
1.5 46.94 98.6 0.045 -- -- 3.3 -- 105999 -- -- --
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)
1.5 1.58 99.3 0.557 -- 2.5 3.4 --

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 1.5 46.94 -- -- -- 100708 5227 98.22 -- 0.16052 0.15921 0.18577 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 1.5 1.539 -- 407 7374 0.289 0.31 -- 99.06
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 21.043
Anisotropic B[1][1] 0.05
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.79
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.83
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_other 6.26
r_scbond_it 4.179
r_bond_refined_d 0.025
r_dihedral_angle_2_deg 31.241
r_angle_refined_deg 2.343
r_long_range_B_refined 8.987
r_dihedral_angle_3_deg 12.425
r_gen_planes_refined 0.015
r_dihedral_angle_1_deg 7.299
r_scbond_other 4.178
r_long_range_B_other 8.986
r_mcbond_it 2.72
r_mcangle_other 4.063
r_chiral_restr 0.145
r_mcbond_other 2.704
r_gen_planes_other 0.011
r_mcangle_it 4.063
r_dihedral_angle_4_deg 15.439
r_angle_other_deg 2.264
r_bond_other_d 0.015
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4672
Nucleic Acid Atoms 0
Heterogen Atoms 121
Solvent Atoms 637

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0131
MOLREP phasing version: 11.4.03