X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details 40% MPD, SPERMINE, MAGNESIUM CHLORIDE, SODIUM CACODYLATE PH 7.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 25.3 α = 90
b = 40.27 β = 90
c = 64.88 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
PIXEL DECTRIS PILATUS 2M MIRRORS 2011-07-24
Diffraction Radiation
Monochromator Protocol
SI (111) DOUBLE CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I04-1 -- Diamond I04-1

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
1.21 34.22 95.8 0.02 -- -- 5.3 -- 19814 -- 1.0 15.58
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)
1.21 1.24 79.4 0.52 -- 2.4 4.3 --

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 1.3 34.2 -- 0.0 -- 17362 2971 93.78 -- 0.1452 0.1421 0.1734 --
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 1.3 1.3213 -- 130 1167 0.1948 0.2261 -- 84.0
X Ray Diffraction 1.3213 1.3441 -- 121 1149 0.1855 0.2134 -- 85.0
X Ray Diffraction 1.3441 1.3685 -- 136 1180 0.1809 0.2285 -- 89.0
X Ray Diffraction 1.3685 1.3949 -- 137 1240 0.1621 0.2393 -- 91.0
X Ray Diffraction 1.3949 1.4233 -- 135 1214 0.1664 0.2242 -- 92.0
X Ray Diffraction 1.4233 1.4543 -- 142 1259 0.1503 0.2022 -- 94.0
X Ray Diffraction 1.4543 1.4881 -- 147 1296 0.1595 0.2397 -- 94.0
X Ray Diffraction 1.4881 1.5253 -- 139 1201 0.1401 0.1885 -- 91.0
X Ray Diffraction 1.5253 1.5666 -- 141 1300 0.1195 0.1947 -- 96.0
X Ray Diffraction 1.5666 1.6127 -- 146 1291 0.1129 0.1627 -- 95.0
X Ray Diffraction 1.6127 1.6647 -- 144 1284 0.1001 0.1261 -- 95.0
X Ray Diffraction 1.6647 1.7242 -- 142 1299 0.0979 0.1537 -- 97.0
X Ray Diffraction 1.7242 1.7932 -- 149 1330 0.1065 0.1331 -- 97.0
X Ray Diffraction 1.7932 1.8749 -- 146 1312 0.1243 0.1795 -- 98.0
X Ray Diffraction 1.8749 1.9737 -- 147 1322 0.1294 0.1921 -- 98.0
X Ray Diffraction 1.9737 2.0973 -- 141 1237 0.1325 0.1572 -- 92.0
X Ray Diffraction 2.0973 2.2592 -- 148 1318 0.1357 0.1952 -- 98.0
X Ray Diffraction 2.2592 2.4865 -- 146 1324 0.1655 0.2007 -- 97.0
X Ray Diffraction 2.4865 2.8462 -- 149 1300 0.1505 0.1917 -- 97.0
X Ray Diffraction 2.8462 3.5853 -- 141 1286 0.1645 0.1664 -- 95.0
X Ray Diffraction 3.5853 34.2269 -- 144 1288 0.1385 0.1432 -- 96.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.06
Anisotropic B[1][1] 7.7695
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -6.7934
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.9761
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 2.486
f_bond_d 0.022
f_dihedral_angle_d 30.11
f_chiral_restr 0.124
f_plane_restr 0.041
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 0
Nucleic Acid Atoms 490
Heterogen Atoms 1
Solvent Atoms 136

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE)
xia2 data reduction
SCALA data scaling
PHASER phasing