X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.5
Temperature 291.0
Details 0.2M Sodium chloride, 0.1M Bis-Tris (pH 5.5) and 25% w/v PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 161.93 α = 90
b = 161.93 β = 90
c = 166.43 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 270 -- 2009-03-21
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE BL-17A 1.0000 Photon Factory BL-17A

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 50 97.0 0.155 -- -- 22.6 37177 33573 0.0 -- 97.7
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 3.3 64.6 0.652 -- -- 4.0 2900

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 48.943 -- 1.34 -- 33573 1771 94.13 0.231 0.223 0.2204 0.2721 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 3.286 -- 71 1370 0.349 0.373 -- 52.0
X Ray Diffraction 3.286 3.383 -- 100 2068 0.329 0.368 -- 77.0
X Ray Diffraction 3.383 3.492 -- 129 2506 0.284 0.378 -- 94.0
X Ray Diffraction 3.492 3.617 -- 152 2654 0.258 0.323 -- 100.0
X Ray Diffraction 3.617 3.762 -- 160 2646 0.238 0.299 -- 100.0
X Ray Diffraction 3.762 3.933 -- 133 2699 0.226 0.277 -- 100.0
X Ray Diffraction 3.933 4.14 -- 142 2680 0.197 0.23 -- 100.0
X Ray Diffraction 4.14 4.4 -- 156 2685 0.189 0.229 -- 100.0
X Ray Diffraction 4.4 4.739 -- 134 2711 0.18 0.237 -- 100.0
X Ray Diffraction 4.739 5.215 -- 143 2717 0.18 0.242 -- 100.0
X Ray Diffraction 5.215 5.969 -- 151 2726 0.205 0.264 -- 100.0
X Ray Diffraction 5.969 7.516 -- 158 2760 0.207 0.241 -- 100.0
X Ray Diffraction 7.516 48.948 -- 142 2926 0.212 0.264 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 86.617
Anisotropic B[1][1] 9.033
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 9.033
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.906
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.526
f_bond_d 0.009
f_dihedral_angle_d 23.541
f_chiral_restr 0.104
f_plane_restr 0.021
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9512
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 0

Software

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