X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 289.0
Details 0.09 HEPES buffer, 1.26 M sodium citrate, 10% glycerol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 91.97 α = 90
b = 91.97 β = 90
c = 120.02 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2011-07-10
Diffraction Radiation
Monochromator Protocol
double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.9792 APS 19-ID

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
2.37 42.9 99.7 0.058 -- -- 10.4 24306 24306 0.0 0.0 74.1
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)
2.37 2.41 100.0 0.865 -- 27.1 9.4 1204

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
SAD 2.37 42.9 0.0 0.0 24190 24190 1231 99.31 0.2185 0.2185 0.2161 0.2628 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 2.371 2.432 1764 85 1679 0.311 0.378 -- 99.21
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 65.9834
Anisotropic B[1][1] -0.62
Anisotropic B[1][2] -0.31
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.62
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.93
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 22.244
r_gen_planes_refined 0.007
r_chiral_restr 0.11
r_scbond_it 2.355
r_dihedral_angle_3_deg 19.443
r_scangle_it 3.795
r_angle_refined_deg 1.694
r_dihedral_angle_1_deg 6.68
r_mcbond_it 0.779
r_mcangle_it 1.458
r_bond_refined_d 0.017
r_dihedral_angle_2_deg 42.097
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3921
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 29

Software

Software
Software Name Purpose
SCALEPACK data scaling
REFMAC refinement version: 5.5.0109
PDB_EXTRACT data extraction version: 3.10
SBC-Collect data collection
HKL-3000 data reduction
HKL-3000 data scaling
PHENIX phasing