X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 298.0
Details 25% (w/v) PEG 3350, 0.2 M magnesium chloride, 0.1 M Tris-Cl pH8.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 56.63 α = 90
b = 76.5 β = 93.88
c = 111.07 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2012-03-17
Diffraction Radiation
Monochromator Protocol
C(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-G 0.97856 APS 21-ID-G

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
1.68 25 99.4 -- 0.055 -- 3.5 108303 107654 0.0 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)
1.68 1.71 98.8 -- 0.432 2.25 3.0 --

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
MOLECULAR REPLACEMENT 1.7 24.851 -- 1.36 -- 103395 3395 90.5 -- 0.1663 0.1654 0.2111 --
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 1.7 1.7243 -- 109 7298 0.2938 0.3476 -- 87.0
X Ray Diffraction 1.7243 1.75 -- 129 7255 0.265 0.3468 -- 87.0
X Ray Diffraction 1.75 1.7774 -- 141 7363 0.2375 0.2868 -- 87.0
X Ray Diffraction 1.7774 1.8065 -- 118 7310 0.2351 0.2687 -- 88.0
X Ray Diffraction 1.8065 1.8376 -- 137 7395 0.2161 0.2424 -- 88.0
X Ray Diffraction 1.8376 1.871 -- 150 7376 0.1992 0.2675 -- 88.0
X Ray Diffraction 1.871 1.907 -- 154 7391 0.196 0.2872 -- 89.0
X Ray Diffraction 1.907 1.9459 -- 120 7504 0.1915 0.24 -- 89.0
X Ray Diffraction 1.9459 1.9882 -- 147 7450 0.1812 0.2825 -- 89.0
X Ray Diffraction 1.9882 2.0345 -- 171 7436 0.1719 0.2157 -- 90.0
X Ray Diffraction 2.0345 2.0853 -- 127 7516 0.1654 0.1854 -- 90.0
X Ray Diffraction 2.0853 2.1417 -- 153 7536 0.1709 0.2416 -- 90.0
X Ray Diffraction 2.1417 2.2046 -- 132 7609 0.1679 0.1913 -- 90.0
X Ray Diffraction 2.2046 2.2758 -- 144 7604 0.1568 0.2191 -- 91.0
X Ray Diffraction 2.2758 2.357 -- 145 7608 0.1522 0.1968 -- 91.0
X Ray Diffraction 2.357 2.4513 -- 145 7668 0.1527 0.1873 -- 92.0
X Ray Diffraction 2.4513 2.5628 -- 152 7666 0.1674 0.2526 -- 92.0
X Ray Diffraction 2.5628 2.6977 -- 145 7777 0.1817 0.1826 -- 93.0
X Ray Diffraction 2.6977 2.8665 -- 135 7703 0.1727 0.2667 -- 92.0
X Ray Diffraction 2.8665 3.0875 -- 161 7681 0.1764 0.2243 -- 92.0
X Ray Diffraction 3.0875 3.3975 -- 140 7720 0.1634 0.2037 -- 92.0
X Ray Diffraction 3.3975 3.8875 -- 147 7878 0.1394 0.1985 -- 94.0
X Ray Diffraction 3.8875 4.8917 -- 145 8042 0.1213 0.1435 -- 96.0
X Ray Diffraction 4.8917 24.8535 -- 148 7989 0.1577 0.1796 -- 95.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 1.0632
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -1.9583
Anisotropic B[2][2] 1.0855
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.1488
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.008
f_dihedral_angle_d 14.528
f_angle_d 1.681
f_bond_d 0.02
f_chiral_restr 0.132
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7784
Nucleic Acid Atoms 0
Heterogen Atoms 13
Solvent Atoms 1304

Software

Software
Software Name Purpose
HKL-3000 data collection
BALBES phasing
PHENIX refinement version: (phenix.refine: 1.7.3_928)
HKL-3000 data reduction
HKL-3000 data scaling