X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 291.0
Details 0.1M HEPES, 8% 2-methyl-2,4-pentadediol, 13% PEG 6000, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 86.91 α = 90
b = 151.82 β = 90
c = 181.58 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 -- 2008-12-13
Diffraction Radiation
Monochromator Protocol
Si(311) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL7-1 0.98 SSRL BL7-1

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
3.2 48.75 99.0 0.144 0.144 -- 4.1 -- 73790 1.0 1.0 50.19
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)
3.2 3.28 99.5 0.506 0.506 1.4 4.1 2903

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 3.2 48.747 -- 0.03 -- 68907 3452 90.03 -- 0.239 0.237 0.27 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 3.2 3.244 -- 107 2368 0.31 0.329 -- 81.0
X Ray Diffraction 3.244 3.29 -- 136 2426 0.292 0.331 -- 84.0
X Ray Diffraction 3.29 3.339 -- 137 2451 0.287 0.327 -- 84.0
X Ray Diffraction 3.339 3.391 -- 139 2436 0.299 0.334 -- 85.0
X Ray Diffraction 3.391 3.447 -- 119 2423 0.352 0.381 -- 82.0
X Ray Diffraction 3.447 3.507 -- 143 2373 0.297 0.354 -- 83.0
X Ray Diffraction 3.507 3.57 -- 146 2559 0.248 0.289 -- 89.0
X Ray Diffraction 3.57 3.639 -- 141 2573 0.263 0.306 -- 88.0
X Ray Diffraction 3.639 3.713 -- 146 2485 0.295 0.338 -- 86.0
X Ray Diffraction 3.713 3.794 -- 151 2633 0.255 0.293 -- 91.0
X Ray Diffraction 3.794 3.882 -- 145 2552 0.26 0.318 -- 89.0
X Ray Diffraction 3.882 3.979 -- 126 2555 0.288 0.38 -- 87.0
X Ray Diffraction 3.979 4.087 -- 121 2755 0.228 0.274 -- 94.0
X Ray Diffraction 4.087 4.207 -- 163 2688 0.207 0.261 -- 93.0
X Ray Diffraction 4.207 4.343 -- 119 2795 0.197 0.21 -- 94.0
X Ray Diffraction 4.343 4.498 -- 122 2753 0.186 0.214 -- 95.0
X Ray Diffraction 4.498 4.677 -- 148 2717 0.17 0.18 -- 94.0
X Ray Diffraction 4.677 4.89 -- 130 2756 0.178 0.181 -- 94.0
X Ray Diffraction 4.89 5.148 -- 152 2724 0.193 0.216 -- 93.0
X Ray Diffraction 5.148 5.47 -- 124 2739 0.21 0.245 -- 94.0
X Ray Diffraction 5.47 5.892 -- 157 2674 0.221 0.251 -- 93.0
X Ray Diffraction 5.892 6.483 -- 126 2745 0.219 0.273 -- 94.0
X Ray Diffraction 6.483 7.419 -- 143 2751 0.209 0.2 -- 94.0
X Ray Diffraction 7.419 9.336 -- 182 2746 0.173 0.207 -- 96.0
X Ray Diffraction 9.336 48.753 -- 129 2778 0.189 0.197 -- 95.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 44.89
Anisotropic B[1][1] 16.201
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -6.201
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -9.999
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.467
f_dihedral_angle_d 19.296
f_plane_restr 0.009
f_chiral_restr 0.084
f_bond_d 0.015
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 13435
Nucleic Acid Atoms 0
Heterogen Atoms 244
Solvent Atoms 34

Software

Software
Software Name Purpose
Blu-Ice data collection
PHASES phasing
PHENIX refinement version: (phenix.refine)
MOSFLM data reduction
SCALA data scaling