X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.3
Temperature 290.0
Details 60.8% MPD, 100MM NAHEPES PH 7.3- 7.4, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 47.46 α = 90
b = 58.63 β = 90
c = 62.39 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
CCD ADSC QUANTUM 315r -- 2011-08-01
Diffraction Radiation
Monochromator Protocol
double crystal, Si 111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.9791750 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
1.95 50 99.7 0.088 -- -- 8.6 -- 13168 0.0 -3.0 28.96
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)
1.95 2.0 95.7 0.484 0.484 3.05 3.8 961

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 1.95 42.73 -- 0.0 13214 13167 649 -- 0.177 0.177 0.176 0.207 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 1.95 2.0 -- 50 782 0.255 0.297 -- 95.19
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic, TLS
Mean Isotropic B 24.86
Anisotropic B[1][1] 0.73
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.35
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.38
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.006
r_dihedral_angle_1_deg 6.053
r_gen_planes_other 0.001
r_bond_other_d 0.001
r_dihedral_angle_4_deg 20.953
r_angle_other_deg 0.885
r_chiral_restr 0.082
r_bond_refined_d 0.013
r_dihedral_angle_2_deg 40.147
r_dihedral_angle_3_deg 12.647
r_angle_refined_deg 1.455
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1152
Nucleic Acid Atoms 0
Heterogen Atoms 17
Solvent Atoms 117

Software

Software
Software Name Purpose
Blu-Ice data collection
PHASER phasing
REFMAC refinement version: 5.6.0117
XDS data reduction
XSCALE data scaling