X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5
Temperature 293.0
Details 24% PEG 2000 0.2M ammonium acetate 0.1M Bis-Tris pH 5.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 79.26 α = 90
b = 107.58 β = 90
c = 201.55 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 PILATUS3 S 6M mirrors 2013-12-13
Diffraction Radiation
Monochromator Protocol
111SI SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 1.017 EMBL/DESY, HAMBURG X13

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
3.15 50 96.7 0.176 -- -- 3.65 -- 29579 -- -- --
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)
3.15 3.25 94.4 0.848 -- 1.63 3.64 --

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 3.15 46.27 -- -- -- 28097 1480 96.68 -- 0.18806 0.18394 0.26658 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 3.15 3.231 -- 104 1965 0.308 0.433 -- 93.37
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 62.444
Anisotropic B[1][1] -3.61
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 6.47
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.86
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_other 8.215
r_angle_refined_deg 2.091
r_gen_planes_refined 0.009
r_mcbond_other 5.174
r_dihedral_angle_3_deg 19.29
r_dihedral_angle_1_deg 9.226
r_scbond_other 4.962
r_dihedral_angle_2_deg 35.192
r_long_range_B_other 12.346
r_bond_other_d 0.003
r_mcangle_it 8.215
r_angle_other_deg 1.172
r_scbond_it 4.962
r_long_range_B_refined 12.346
r_chiral_restr 0.1
r_mcbond_it 5.177
r_bond_refined_d 0.017
r_scangle_other 7.996
r_gen_planes_other 0.002
r_dihedral_angle_4_deg 19.726
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11527
Nucleic Acid Atoms 0
Heterogen Atoms 83
Solvent Atoms 114

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0103
XDS data reduction
XDS data scaling
MOLREP phasing