X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 293.0
Details 0.1 M Imidazole, 8.25% (w/v) PEG 8000, 1% (v/v) MPD, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 73.39 α = 90
b = 100.28 β = 90
c = 82.15 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 95
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2010-09-12
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-BM 1.0 APS 22-BM

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 24.45 91.7 -- 0.086 -- 5.9 -- 37085 0.0 -3.0 22.53
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 1.66 61.2 -- 0.395 1.99 3.1 2432

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 24.446 -- 0.0 36791 36791 1844 91.28 -- 0.2203 0.2194 0.2371 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 1.5999 1.6431 -- 90 1750 0.3053 0.3414 -- 60.0
X Ray Diffraction 1.6431 1.6914 -- 121 2414 0.2741 0.309 -- 83.0
X Ray Diffraction 1.6914 1.746 -- 167 2819 0.2433 0.3214 -- 97.0
X Ray Diffraction 1.746 1.8084 -- 127 2911 0.2279 0.2312 -- 99.0
X Ray Diffraction 1.8084 1.8808 -- 144 2912 0.2461 0.3149 -- 99.0
X Ray Diffraction 1.8808 1.9664 -- 128 2200 0.4275 0.4728 -- 76.0
X Ray Diffraction 1.9664 2.07 -- 159 2925 0.2283 0.2525 -- 100.0
X Ray Diffraction 2.07 2.1996 -- 150 2913 0.2283 0.2569 -- 99.0
X Ray Diffraction 2.1996 2.3693 -- 136 2476 0.3163 0.3446 -- 84.0
X Ray Diffraction 2.3693 2.6075 -- 160 2938 0.2103 0.2585 -- 100.0
X Ray Diffraction 2.6075 2.9842 -- 146 2966 0.2123 0.2322 -- 100.0
X Ray Diffraction 2.9842 3.7576 -- 157 2805 0.1934 0.2147 -- 94.0
X Ray Diffraction 3.7576 24.4488 -- 159 2918 0.1709 0.1641 -- 94.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic, TLS
Anisotropic B[1][1] 6.6823
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 9.8361
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.8471
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.061
f_dihedral_angle_d 16.129
f_angle_d 0.93
f_bond_d 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2338
Nucleic Acid Atoms 0
Heterogen Atoms 41
Solvent Atoms 228

Software

Computing
Computing Package Purpose
SERGUI Data Collection
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
PHASER (2.1.4) Structure Solution
PHENIX (phenix.refine: 1.7_650) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7_650) refinement
PHASER version: (2.1.4) model building
SERGUI data collection