X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.4
Temperature 293.0
Details 20mM Tris-HCl (pH 7.4), 50mM CaCl2, 0.54% DPC, 2% glycerol, 14% PEG 3000, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 227.34 α = 90
b = 148.24 β = 117.59
c = 161.79 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX225HE -- 2010-01-25
Diffraction Radiation
Monochromator Protocol
Si111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.9 SPring-8 BL44XU

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 50 82.3 -- 0.08 -- 3.6 78312 78312 0.0 0.0 75.1
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)
3.0 3.11 65.5 -- 0.34 2.0 1.8 --

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
MIR 3.008 47.991 -- 1.52 78312 78277 3926 82.96 -- 0.3151 0.3139 0.3374 --
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 3.0081 3.0447 -- 67 1389 0.3973 0.4397 -- 44.0
X Ray Diffraction 3.0447 3.0833 -- 76 2138 0.4008 0.3728 -- 65.0
X Ray Diffraction 3.0833 3.1238 -- 99 2145 0.3887 0.3682 -- 68.0
X Ray Diffraction 3.1238 3.1666 -- 117 2263 0.3936 0.4616 -- 71.0
X Ray Diffraction 3.1666 3.2118 -- 119 2257 0.3963 0.3941 -- 71.0
X Ray Diffraction 3.2118 3.2598 -- 135 2285 0.3898 0.3871 -- 72.0
X Ray Diffraction 3.2598 3.3107 -- 128 2564 0.3794 0.384 -- 79.0
X Ray Diffraction 3.3107 3.365 -- 125 2510 0.3772 0.3773 -- 80.0
X Ray Diffraction 3.365 3.423 -- 133 2567 0.3671 0.3833 -- 80.0
X Ray Diffraction 3.423 3.4852 -- 138 2552 0.3653 0.3854 -- 80.0
X Ray Diffraction 3.4852 3.5522 -- 146 2650 0.3589 0.3628 -- 84.0
X Ray Diffraction 3.5522 3.6247 -- 139 2606 0.3441 0.3809 -- 82.0
X Ray Diffraction 3.6247 3.7035 -- 159 2590 0.3275 0.3205 -- 81.0
X Ray Diffraction 3.7035 3.7896 -- 153 2723 0.3386 0.3354 -- 85.0
X Ray Diffraction 3.7896 3.8843 -- 149 2703 0.3197 0.3473 -- 85.0
X Ray Diffraction 3.8843 3.9893 -- 155 2708 0.3128 0.3395 -- 85.0
X Ray Diffraction 3.9893 4.1066 -- 135 2741 0.301 0.3581 -- 86.0
X Ray Diffraction 4.1066 4.2391 -- 132 2849 0.3024 0.326 -- 88.0
X Ray Diffraction 4.2391 4.3905 -- 161 2853 0.2847 0.3342 -- 89.0
X Ray Diffraction 4.3905 4.5662 -- 138 2832 0.2831 0.272 -- 89.0
X Ray Diffraction 4.5662 4.7738 -- 153 2969 0.2767 0.307 -- 92.0
X Ray Diffraction 4.7738 5.0253 -- 168 2939 0.2701 0.2992 -- 92.0
X Ray Diffraction 5.0253 5.3397 -- 185 2960 0.281 0.3056 -- 94.0
X Ray Diffraction 5.3397 5.7514 -- 143 3030 0.3074 0.2979 -- 94.0
X Ray Diffraction 5.7514 6.329 -- 180 3072 0.2963 0.3152 -- 96.0
X Ray Diffraction 6.329 7.2421 -- 179 3133 0.2903 0.3171 -- 97.0
X Ray Diffraction 7.2421 9.1141 -- 147 3198 0.2743 0.3023 -- 98.0
X Ray Diffraction 9.1141 47.9967 -- 167 3125 0.3206 0.3656 -- 95.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 119.383
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 2.056
f_plane_restr 0.009
f_chiral_restr 0.102
f_dihedral_angle_d 19.101
f_bond_d 0.029
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 22183
Nucleic Acid Atoms 0
Heterogen Atoms 3631
Solvent Atoms 5

Software

Software
Software Name Purpose
HKL-2000 data collection
SOLVE phasing
PHENIX refinement version: (phenix.refine: 1.8.1_1168)
HKL-2000 data reduction
HKL-2000 data scaling