X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 291.0
Details 10% PEG 6000, 5% MPD, 0.1M MES, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 67.69 α = 115.14
b = 119.01 β = 94.96
c = 123.61 γ = 96.78
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2010-03-10
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 1.0000 SSRF BL17U

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
3 50 93.8 -- -- -- -- 64342 64342 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)
3.0 3.11 66.8 -- -- -- -- --

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 2.997 46.748 -- 0.08 60635 60635 3099 88.08 0.2117 0.2117 0.21 0.2431 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 2.9974 3.0443 -- 77 1376 0.3193 0.3101 -- 46.0
X Ray Diffraction 3.0443 3.0942 -- 95 1719 0.307 0.3322 -- 57.0
X Ray Diffraction 3.0942 3.1475 -- 96 1951 0.2946 0.3182 -- 66.0
X Ray Diffraction 3.1475 3.2047 -- 118 2178 0.2908 0.3525 -- 73.0
X Ray Diffraction 3.2047 3.2663 -- 130 2353 0.2713 0.3114 -- 80.0
X Ray Diffraction 3.2663 3.333 -- 131 2487 0.2638 0.301 -- 83.0
X Ray Diffraction 3.333 3.4054 -- 145 2595 0.257 0.3288 -- 88.0
X Ray Diffraction 3.4054 3.4846 -- 142 2679 0.2486 0.3148 -- 91.0
X Ray Diffraction 3.4846 3.5718 -- 162 2753 0.2341 0.2681 -- 93.0
X Ray Diffraction 3.5718 3.6683 -- 140 2761 0.221 0.264 -- 93.0
X Ray Diffraction 3.6683 3.7762 -- 145 2803 0.2119 0.25 -- 94.0
X Ray Diffraction 3.7762 3.898 -- 138 2818 0.2018 0.2525 -- 96.0
X Ray Diffraction 3.898 4.0373 -- 150 2902 0.1861 0.2257 -- 96.0
X Ray Diffraction 4.0373 4.1988 -- 157 2871 0.1843 0.225 -- 96.0
X Ray Diffraction 4.1988 4.3898 -- 160 2834 0.1793 0.1962 -- 97.0
X Ray Diffraction 4.3898 4.621 -- 165 2897 0.1566 0.1846 -- 98.0
X Ray Diffraction 4.621 4.9102 -- 153 2902 0.1662 0.1975 -- 98.0
X Ray Diffraction 4.9102 5.2889 -- 141 2948 0.1762 0.2083 -- 98.0
X Ray Diffraction 5.2889 5.8202 -- 151 2921 0.1778 0.2192 -- 98.0
X Ray Diffraction 5.8202 6.6604 -- 168 2905 0.1964 0.2252 -- 99.0
X Ray Diffraction 6.6604 8.3835 -- 176 2937 0.1979 0.2164 -- 99.0
X Ray Diffraction 8.3835 46.7532 -- 159 2946 0.2074 0.2222 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 60.6506
Anisotropic B[1][1] 16.7963
Anisotropic B[1][2] -4.8772
Anisotropic B[1][3] -0.011
Anisotropic B[2][2] -2.4652
Anisotropic B[2][3] 9.012
Anisotropic B[3][3] -14.3312
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.105
f_dihedral_angle_d 17.115
f_plane_restr 0.004
f_bond_d 0.004
f_angle_d 0.958
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 22962
Nucleic Acid Atoms 0
Heterogen Atoms 168
Solvent Atoms 147

Software

Software
Software Name Purpose
MAR345dtb data collection
PHASER phasing
PHENIX refinement version: (phenix.refine: 1.5_2)
HKL-2000 data reduction
HKL-2000 data scaling