X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.6
Temperature 293.0
Details 0.8 to 1.1M Sodium Citrate, 0.1M Tris, pH 7.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 70.21 α = 90
b = 70.21 β = 90
c = 104.67 γ = 120
Symmetry
Space Group P 63

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 105
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2007-09-09
Diffraction Radiation
Monochromator Protocol
Diamond (111), Ge(220) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-1 0.934 ESRF ID14-1

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
1.6 60.8 99.4 0.057 -- -- 6.9 -- 38246 -- -- 16.685
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)
1.6 1.69 99.9 0.31 -- 2.4 5.6 5578

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 1.6 60.806 -- 1.86 -- 38246 1914 99.28 -- 0.174 0.173 0.197 --
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 1.6 1.64 -- 113 2598 0.181 0.219 -- 99.0
X Ray Diffraction 1.64 1.684 -- 134 2594 0.182 0.223 -- 100.0
X Ray Diffraction 1.684 1.734 -- 137 2608 0.174 0.208 -- 100.0
X Ray Diffraction 1.734 1.79 -- 131 2618 0.164 0.204 -- 100.0
X Ray Diffraction 1.79 1.854 -- 137 2601 0.169 0.19 -- 100.0
X Ray Diffraction 1.854 1.928 -- 132 2594 0.166 0.174 -- 100.0
X Ray Diffraction 1.928 2.016 -- 130 2628 0.164 0.199 -- 100.0
X Ray Diffraction 2.016 2.122 -- 139 2582 0.164 0.19 -- 100.0
X Ray Diffraction 2.122 2.255 -- 151 2595 0.159 0.191 -- 100.0
X Ray Diffraction 2.255 2.429 -- 141 2596 0.169 0.204 -- 99.0
X Ray Diffraction 2.429 2.674 -- 154 2560 0.179 0.209 -- 99.0
X Ray Diffraction 2.674 3.06 -- 135 2604 0.177 0.191 -- 99.0
X Ray Diffraction 3.06 3.856 -- 139 2573 0.156 0.19 -- 98.0
X Ray Diffraction 3.856 60.85 -- 141 2581 0.187 0.186 -- 97.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 16.905
Anisotropic B[1][1] -0.103
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.103
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.206
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 19.039
f_bond_d 0.006
f_angle_d 1.142
f_plane_restr 0.004
f_chiral_restr 0.069
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2113
Nucleic Acid Atoms 0
Heterogen Atoms 56
Solvent Atoms 184

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
AMoRE phasing
PHENIX refinement
MOSFLM data reduction
SCALA data scaling