X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 295.0
Details 200 mM Ammonium citrate dibasic, 20% (w/v) PEG 3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 53.93 α = 90
b = 110.04 β = 90
c = 38.94 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M-F -- 2017-10-23
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 0.9724 ESRF ID23-1

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
1.07 48.43 99.6 0.066 -- -- 5.3 -- 102522 -- -- --
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)
1.07 1.09 97.8 2.06 -- -- 5.0 --

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 1.07 48.43 -- 0.0 -- 97254 5195 99.43 -- 0.1259 0.1247 0.1484 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 1.07 1.098 -- 398 6972 0.295 0.301 0.0 98.11
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.487
Anisotropic B[1][1] 0.01
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.19
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.2
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.021
r_rigid_bond_restr 5.487
r_sphericity_bonded 13.72
r_angle_other_deg 1.011
r_dihedral_angle_3_deg 10.333
r_gen_planes_refined 0.014
r_chiral_restr 0.137
r_dihedral_angle_4_deg 20.221
r_sphericity_free 34.542
r_dihedral_angle_1_deg 6.788
r_dihedral_angle_2_deg 34.362
r_angle_refined_deg 2.044
r_gen_planes_other 0.003
r_bond_other_d 0.001
Coordinate Error
Parameter Value
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1607
Nucleic Acid Atoms 0
Heterogen Atoms 86
Solvent Atoms 307

Software

Software
Software Name Purpose
Aimless data scaling version: 0.3.11
REFMAC refinement version: 5.8.0073
PDB_EXTRACT data extraction version: 3.25
XDS data reduction
MOLREP phasing