X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 7
Temperature 296.0
Details 20mM Cacodylate; 6mM Spermine*HCl; 40mM NaCl; 10mM BaCl2 5% 2-M-2,4PD, pH 7.0, VAPOR DIFFUSION, temperature 296K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 24.04 α = 74.67
b = 24.8 β = 84.42
c = 37.52 γ = 76.21
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2010-12-03
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL12-2 .7749 SSRL BL12-2

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
0.92 36 82.7 0.03 0.03 -- 3.9 -- 46920 -1.0 -1.0 --

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 0.92 23.33 -- 1.98 -- 46920 4695 81.74 -- 0.1401 0.1397 0.149 --
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 0.92 0.9305 -- 88 1572 0.2866 0.3264 -- 45.0
X Ray Diffraction 0.9305 0.9414 -- 116 2133 0.2697 0.291 -- 60.0
X Ray Diffraction 0.9414 0.9529 -- 143 2743 0.2642 0.2969 -- 75.0
X Ray Diffraction 0.9529 0.965 -- 149 2817 0.2504 0.2756 -- 80.0
X Ray Diffraction 0.965 0.9777 -- 142 2890 0.2157 0.2312 -- 81.0
X Ray Diffraction 0.9777 0.9911 -- 157 2956 0.2046 0.2629 -- 82.0
X Ray Diffraction 0.9911 1.0052 -- 146 2834 0.1955 0.2218 -- 80.0
X Ray Diffraction 1.0052 1.0202 -- 156 2788 0.1824 0.2175 -- 81.0
X Ray Diffraction 1.0202 1.0362 -- 131 2910 0.1802 0.1964 -- 78.0
X Ray Diffraction 1.0362 1.0532 -- 156 2721 0.1664 0.1948 -- 79.0
X Ray Diffraction 1.0532 1.0713 -- 156 3082 0.153 0.182 -- 85.0
X Ray Diffraction 1.0713 1.0908 -- 156 3040 0.147 0.1612 -- 85.0
X Ray Diffraction 1.0908 1.1118 -- 173 3029 0.1409 0.1522 -- 87.0
X Ray Diffraction 1.1118 1.1345 -- 165 3079 0.1354 0.1746 -- 85.0
X Ray Diffraction 1.1345 1.1592 -- 192 2952 0.1297 0.1443 -- 84.0
X Ray Diffraction 1.1592 1.1861 -- 174 2895 0.1253 0.1507 -- 82.0
X Ray Diffraction 1.1861 1.2158 -- 150 2681 0.1234 0.1398 -- 76.0
X Ray Diffraction 1.2158 1.2487 -- 170 3184 0.1196 0.1276 -- 88.0
X Ray Diffraction 1.2487 1.2854 -- 157 3076 0.1141 0.1467 -- 87.0
X Ray Diffraction 1.2854 1.3269 -- 204 3108 0.1062 0.1195 -- 88.0
X Ray Diffraction 1.3269 1.3743 -- 167 3142 0.1073 0.1321 -- 88.0
X Ray Diffraction 1.3743 1.4293 -- 153 3130 0.1073 0.1351 -- 87.0
X Ray Diffraction 1.4293 1.4944 -- 190 2856 0.1042 0.1324 -- 81.0
X Ray Diffraction 1.4944 1.5731 -- 145 3048 0.115 0.1286 -- 85.0
X Ray Diffraction 1.5731 1.6717 -- 172 3226 0.1197 0.1122 -- 90.0
X Ray Diffraction 1.6717 1.8007 -- 171 3103 0.1237 0.1357 -- 88.0
X Ray Diffraction 1.8007 1.9818 -- 122 3153 0.1319 0.1502 -- 87.0
X Ray Diffraction 1.9818 2.2684 -- 142 2904 0.139 0.1521 -- 81.0
X Ray Diffraction 2.2684 2.8571 -- 197 3157 0.1604 0.1553 -- 90.0
X Ray Diffraction 2.8571 23.3378 -- 155 3110 0.1524 0.1494 -- 86.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -0.2315
Anisotropic B[1][2] -1.9032
Anisotropic B[1][3] 0.7312
Anisotropic B[2][2] 1.5877
Anisotropic B[2][3] 0.3666
Anisotropic B[3][3] -1.3562
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.011
f_chiral_restr 0.074
f_angle_d 1.62
f_dihedral_angle_d 34.206
f_plane_restr 0.017
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 0
Nucleic Acid Atoms 488
Heterogen Atoms 237
Solvent Atoms 197

Software

Software
Software Name Purpose
Blu-Ice data collection
SHELXD phasing
PHENIX refinement version: (phenix.refine: 1.7.3_928)
XDS data reduction
SCALA data scaling