X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 3.5
Temperature 298.0
Details 2 M NaCl, 0.1 M citric acid (pH 3.5) , VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 36.64 α = 99.24
b = 43.66 β = 96.53
c = 47.41 γ = 107.35
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210r -- 2008-06-18
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-BM 0.97929 APS 19-BM

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
1.8 46.1 97.2 -- -- -- -- 25248 24541 2.0 2.0 --
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)
1.8 1.86 94.4 -- -- -- -- --

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 1.8 25.574 -- 0.06 -- 22863 2314 90.47 -- 0.2113 0.2087 0.2342 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 1.8004 1.8372 -- 96 894 0.2845 0.3512 -- 65.0
X Ray Diffraction 1.8372 1.8771 -- 96 921 0.2857 0.3767 -- 70.0
X Ray Diffraction 1.8771 1.9208 -- 114 1033 0.2415 0.3176 -- 76.0
X Ray Diffraction 1.9208 1.9688 -- 144 1113 0.2092 0.2895 -- 85.0
X Ray Diffraction 1.9688 2.022 -- 144 1169 0.2112 0.2584 -- 90.0
X Ray Diffraction 2.022 2.0815 -- 135 1256 0.2031 0.2462 -- 94.0
X Ray Diffraction 2.0815 2.1486 -- 132 1270 0.2035 0.2687 -- 94.0
X Ray Diffraction 2.1486 2.2254 -- 145 1259 0.2052 0.2327 -- 96.0
X Ray Diffraction 2.2254 2.3144 -- 146 1259 0.1979 0.2573 -- 94.0
X Ray Diffraction 2.3144 2.4197 -- 137 1272 0.2223 0.2529 -- 95.0
X Ray Diffraction 2.4197 2.5471 -- 152 1252 0.2188 0.2554 -- 95.0
X Ray Diffraction 2.5471 2.7066 -- 139 1294 0.2349 0.2638 -- 96.0
X Ray Diffraction 2.7066 2.9153 -- 142 1302 0.2375 0.2624 -- 97.0
X Ray Diffraction 2.9153 3.2081 -- 143 1291 0.2147 0.2244 -- 98.0
X Ray Diffraction 3.2081 3.6712 -- 154 1340 0.1995 0.2131 -- 99.0
X Ray Diffraction 3.6712 4.6209 -- 149 1315 0.1683 0.1821 -- 99.0
X Ray Diffraction 4.6209 25.5768 -- 146 1309 0.2179 0.2249 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 6.3499
Anisotropic B[1][2] 1.8666
Anisotropic B[1][3] -3.0107
Anisotropic B[2][2] 1.2253
Anisotropic B[2][3] -6.4771
Anisotropic B[3][3] -7.5752
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.002
f_chiral_restr 0.038
f_dihedral_angle_d 8.939
f_angle_d 0.566
f_bond_d 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1880
Nucleic Acid Atoms 0
Heterogen Atoms 8
Solvent Atoms 161

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
Phaser Structure Solution
PHENIX (phenix.refine: 1.6.4_486) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.6.4_486) refinement
Phaser model building
ADSC version: Quantum data collection