X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 293.15
Details 0.2 M Sodium thiocyanate, 20% w/v PEG 3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 43.62 α = 90
b = 54.51 β = 107.07
c = 66.4 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2013-05-31
Diffraction Radiation
Monochromator Protocol
double crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 1.0050 SSRF BL17U

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
1.98 50 99.9 0.068 -- 24.83 5.3 -- 21090 -- -- --
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)
1.98 2.01 100.0 0.356 -- -- 5.2 1051

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 1.98 41.36 -- 0.0 -- 19842 1068 99.94 -- 0.1791 0.177 0.2187 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 1.98 2.031 -- 82 1448 0.216 0.31 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.6
Anisotropic B[1][1] -0.01
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.02
Anisotropic B[2][2] 0.02
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.01
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.01
r_scbond_it 4.056
r_mcangle_it 2.77
r_dihedral_angle_2_deg 39.019
r_angle_refined_deg 2.069
r_mcbond_it 1.536
r_dihedral_angle_3_deg 14.554
r_bond_refined_d 0.026
r_dihedral_angle_1_deg 5.853
r_dihedral_angle_4_deg 15.788
r_scangle_it 6.77
r_chiral_restr 0.148
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2135
Nucleic Acid Atoms 0
Heterogen Atoms 26
Solvent Atoms 197

Software

Software
Software Name Purpose
REFMAC refinement version: 5.7.0029
SCALEPACK data reduction
PHASER phasing version: 2.5.1
PDB_EXTRACT data extraction version: 3.15