X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 293.0
Details 20% PEG3350, 0.2 M ammonium chloride, 0.1 M proline

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 77.82 α = 89.81
b = 78.05 β = 74.54
c = 109.71 γ = 73.15
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M mirrors 2013-12-18
Diffraction Radiation
Monochromator Protocol
Si 1 1 1 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 1.071060 PETRA III, EMBL c/o DESY P13 (MX1)

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
2.54 50 90.1 0.092 -- -- 3.64 -- 70636 -- -3.0 --
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)
2.54 2.64 87.5 0.694 -- 2.09 3.46 --

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 2.54 49.0 -- -- -- 69222 1414 90.19 -- 0.1969 0.19563 0.25758 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 2.54 2.606 -- 99 4830 0.269 0.357 -- 84.82
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 54.284
Anisotropic B[1][1] 3.25
Anisotropic B[1][2] -0.36
Anisotropic B[1][3] -2.02
Anisotropic B[2][2] -1.18
Anisotropic B[2][3] 0.54
Anisotropic B[3][3] -2.26
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 6.819
r_dihedral_angle_1_deg 7.306
r_scbond_it 5.674
r_mcbond_it 4.6
r_gen_planes_refined 0.009
r_angle_refined_deg 2.119
r_long_range_B_refined 11.278
r_dihedral_angle_3_deg 20.726
r_bond_refined_d 0.02
r_dihedral_angle_2_deg 37.886
r_chiral_restr 0.136
r_dihedral_angle_4_deg 23.469
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 18580
Nucleic Acid Atoms 0
Heterogen Atoms 162
Solvent Atoms 387

Software

Software
Software Name Purpose
REFMAC refinement version: 5.7.0032
XDS data reduction
XDS data scaling
MOLREP phasing