X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Microbatch Crystallization Under Oil
pH 10
Temperature 291.0
Details 40% PEG 8000, 0.1 M sodium bromide, 0.1 M CAPS, pH 10.0, Microbatch crystallization under oil, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 62.96 α = 90
b = 36.08 β = 100
c = 82.16 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 MAR CCD 165 mm -- 2013-10-03
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X4C 0.97907 NSLS X4C

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
1.55 50 96.7 0.081 -- -- 3.7 103638 100218 0.0 0.0 19.13
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)
1.55 1.61 94.2 0.688 -- 2.1 3.6 10387

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 1.548 36.946 -- 1.13 -- 100121 5063 96.47 -- 0.201 0.201 0.219 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 1.548 1.565 -- 139 3005 0.329 0.382 -- 90.0
X Ray Diffraction 1.565 1.584 -- 176 3044 0.301 0.32 -- 94.0
X Ray Diffraction 1.584 1.603 -- 180 3097 0.296 0.262 -- 95.0
X Ray Diffraction 1.603 1.623 -- 199 3038 0.277 0.341 -- 94.0
X Ray Diffraction 1.623 1.645 -- 145 3148 0.259 0.299 -- 94.0
X Ray Diffraction 1.645 1.667 -- 177 3011 0.256 0.287 -- 95.0
X Ray Diffraction 1.667 1.691 -- 158 3202 0.259 0.275 -- 95.0
X Ray Diffraction 1.691 1.716 -- 165 3134 0.243 0.285 -- 94.0
X Ray Diffraction 1.716 1.743 -- 149 3075 0.233 0.264 -- 95.0
X Ray Diffraction 1.743 1.772 -- 186 3171 0.235 0.282 -- 96.0
X Ray Diffraction 1.772 1.802 -- 176 3103 0.226 0.263 -- 95.0
X Ray Diffraction 1.802 1.835 -- 159 3079 0.22 0.225 -- 96.0
X Ray Diffraction 1.835 1.87 -- 164 3209 0.213 0.271 -- 96.0
X Ray Diffraction 1.87 1.909 -- 134 3226 0.209 0.239 -- 96.0
X Ray Diffraction 1.909 1.95 -- 155 3133 0.191 0.172 -- 97.0
X Ray Diffraction 1.95 1.995 -- 175 3243 0.202 0.229 -- 97.0
X Ray Diffraction 1.995 2.045 -- 144 3139 0.207 0.22 -- 97.0
X Ray Diffraction 2.045 2.101 -- 174 3206 0.195 0.223 -- 97.0
X Ray Diffraction 2.101 2.162 -- 165 3216 0.192 0.238 -- 98.0
X Ray Diffraction 2.162 2.232 -- 202 3186 0.19 0.21 -- 98.0
X Ray Diffraction 2.232 2.312 -- 221 3113 0.188 0.206 -- 98.0
X Ray Diffraction 2.312 2.405 -- 159 3308 0.191 0.18 -- 98.0
X Ray Diffraction 2.405 2.514 -- 168 3203 0.187 0.201 -- 98.0
X Ray Diffraction 2.514 2.647 -- 170 3237 0.195 0.21 -- 99.0
X Ray Diffraction 2.647 2.812 -- 175 3269 0.2 0.225 -- 99.0
X Ray Diffraction 2.812 3.029 -- 185 3200 0.194 0.213 -- 99.0
X Ray Diffraction 3.029 3.334 -- 186 3232 0.195 0.204 -- 99.0
X Ray Diffraction 3.334 3.816 -- 158 3265 0.18 0.206 -- 99.0
X Ray Diffraction 3.816 4.806 -- 140 3307 0.164 0.164 -- 99.0
X Ray Diffraction 4.806 36.957 -- 179 3259 0.222 0.226 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.629
Anisotropic B[1][1] -3.104
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.414
Anisotropic B[2][2] 8.014
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.91
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_bond_d 0.009
f_angle_d 1.428
f_chiral_restr 0.127
f_dihedral_angle_d 15.895
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3075
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 295

Software

Software
Software Name Purpose
PHENIX refinement version: 1.7.2_869
PDB_EXTRACT data extraction version: 3.100
HKL-2000 data collection
HKL-2000 data reduction
HKL-2000 data scaling
AutoSol phasing