X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 4.6
Temperature 298.0
Details 5% PEG 4000, 150mM NaCl, 50mM Citric Acid, 5% Glycerol, pH 4.6, vapor diffusion, hanging drop, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 89.9 α = 90
b = 93.11 β = 90
c = 114.16 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 315 OPTICS 2005-03-03
Diffraction Radiation
Monochromator Protocol
SI(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 1.28237 ALS 8.3.1

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
2.4 68.52 99.5 0.055 -- -- 3.8 38157 37966 1.36 -- --
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)
2.4 2.53 99.5 0.496 0.496 2.0 3.3 --

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 2.4 35.04 -- -- 38141 37966 1579 99.5 -- 0.216 0.214 0.262 --
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 2.4 2.477 -- 141 3251 0.261 0.311 -- 100.0
X Ray Diffraction 2.477 2.566 -- 142 3269 0.245 0.323 -- 100.0
X Ray Diffraction 2.566 2.669 -- 142 3271 0.255 0.283 -- 100.0
X Ray Diffraction 2.669 2.79 -- 141 3274 0.254 0.358 -- 100.0
X Ray Diffraction 2.79 2.937 -- 143 3274 0.255 0.307 -- 100.0
X Ray Diffraction 2.937 3.121 -- 143 3290 0.248 0.33 -- 100.0
X Ray Diffraction 3.121 3.362 -- 143 3303 0.24 0.3 -- 100.0
X Ray Diffraction 3.362 3.7 -- 144 3319 0.209 0.259 -- 100.0
X Ray Diffraction 3.7 4.234 -- 144 3332 0.188 0.232 -- 100.0
X Ray Diffraction 4.234 5.332 -- 146 3357 0.159 0.204 -- 100.0
X Ray Diffraction 5.332 35.048 -- 150 3447 0.199 0.226 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 63.85
Anisotropic B[1][1] -1.542
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.028
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.57
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.006
f_angle_d 0.961
f_dihedral_angle_d 16.398
f_chiral_restr 0.062
f_plane_restr 0.004
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5898
Nucleic Acid Atoms 0
Heterogen Atoms 55
Solvent Atoms 250

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling
PHASER phasing
RESOLVE phasing
PHENIX refinement
PDB_EXTRACT data extraction version: 3.006