X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 10.5
Temperature 293.0
Details 40% 2-methyl-1,3-propanediol, 0.1 M CAPS, 2mM STO1102, pH 10.5, VAPOR DIFFUSION, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 69.68 α = 90
b = 45.38 β = 90.25
c = 123.39 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 ADSC QUANTUM 315r mirrors 2010-11-12
Diffraction Radiation
Monochromator Protocol
channel cut ESRF monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 0.93928 ESRF ID14-4

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
2.4 40 98.1 0.159 -- -- 3.6 30110 30110 0.0 0.0 --
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)
2.4 2.46 91.1 0.692 -- 3.8 3.6 1988

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 2.4 38.028 0.0 0.0 30110 30110 2020 98.14 0.2241 0.2241 0.2198 0.2866 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 2.4 2.4603 1927 128 1799 0.3464 0.3962 -- 85.0
X Ray Diffraction 2.4603 2.5268 2194 145 2049 0.302 0.3851 -- 93.0
X Ray Diffraction 2.5268 2.6011 2121 142 1979 0.2944 0.3486 -- 93.0
X Ray Diffraction 2.6011 2.6851 2195 141 2054 0.2789 0.3313 -- 93.0
X Ray Diffraction 2.6851 2.781 2142 147 1995 0.2684 0.3016 -- 92.0
X Ray Diffraction 2.781 2.8923 2151 141 2010 0.2525 0.3118 -- 93.0
X Ray Diffraction 2.8923 3.0239 2194 147 2047 0.2495 0.3335 -- 93.0
X Ray Diffraction 3.0239 3.1832 2147 141 2006 0.2216 0.3119 -- 93.0
X Ray Diffraction 3.1832 3.3825 2163 145 2018 0.2091 0.2547 -- 93.0
X Ray Diffraction 3.3825 3.6434 2181 143 2038 0.187 0.2522 -- 93.0
X Ray Diffraction 3.6434 4.0096 2160 142 2018 0.1896 0.2363 -- 93.0
X Ray Diffraction 4.0096 4.5888 2198 144 2054 0.1646 0.2414 -- 92.0
X Ray Diffraction 4.5888 5.7773 2161 150 2011 0.1947 0.288 -- 91.0
X Ray Diffraction 5.7773 35.4896 2169 143 2026 0.2259 0.29 -- 88.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -7.2183
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.7898
Anisotropic B[2][2] -18.9609
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 26.1792
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.003
f_angle_d 0.865
f_plane_restr 0.004
f_dihedral_angle_d 15.665
f_chiral_restr 0.06
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6305
Nucleic Acid Atoms 0
Heterogen Atoms 53
Solvent Atoms 83

Software

Software
Software Name Purpose
MxCuBE data collection
MOLREP phasing
PHENIX refinement version: (phenix.refine: 1.7_650)
XDS data reduction
XSCALE data scaling