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 14% (w/v) PEG 8000, 2% (v/v) MPD, 0.1 M imidazole pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 140.59 α = 90
b = 75.8 β = 111.99
c = 54.69 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 200
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2012-03-10
Diffraction Radiation
Monochromator Protocol
Si (220) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-BM 1.00 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
1.69 50 90.7 -- -- -- -- 59036 53546 1.0 1.0 --
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)
1.694 1.73 56.1 0.387 -- 1.88 2.2 --

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 1.694 24.806 -- 1.35 59149 53364 2654 90.22 -- 0.1866 0.1854 0.2108 --
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 1.694 1.725 -- 85 1564 0.2612 0.3461 -- 53.0
X Ray Diffraction 1.725 1.7582 -- 92 1795 0.2524 0.2445 -- 61.0
X Ray Diffraction 1.7582 1.794 -- 112 2080 0.2494 0.3347 -- 71.0
X Ray Diffraction 1.794 1.833 -- 127 2327 0.2373 0.2958 -- 79.0
X Ray Diffraction 1.833 1.8757 -- 129 2507 0.2376 0.2469 -- 85.0
X Ray Diffraction 1.8757 1.9225 -- 113 2599 0.242 0.2543 -- 88.0
X Ray Diffraction 1.9225 1.9745 -- 154 2763 0.2292 0.2852 -- 94.0
X Ray Diffraction 1.9745 2.0326 -- 147 2868 0.209 0.2405 -- 97.0
X Ray Diffraction 2.0326 2.0981 -- 151 2881 0.1972 0.2206 -- 97.0
X Ray Diffraction 2.0981 2.1731 -- 137 2896 0.1932 0.2115 -- 98.0
X Ray Diffraction 2.1731 2.26 -- 147 2868 0.2087 0.2749 -- 98.0
X Ray Diffraction 2.26 2.3628 -- 146 2933 0.2159 0.2441 -- 99.0
X Ray Diffraction 2.3628 2.4873 -- 159 2937 0.2014 0.2228 -- 99.0
X Ray Diffraction 2.4873 2.643 -- 144 2932 0.2045 0.2328 -- 99.0
X Ray Diffraction 2.643 2.8468 -- 165 2963 0.2036 0.2187 -- 99.0
X Ray Diffraction 2.8468 3.1327 -- 168 2919 0.1967 0.2363 -- 100.0
X Ray Diffraction 3.1327 3.5849 -- 167 2963 0.1787 0.2014 -- 100.0
X Ray Diffraction 3.5849 4.5122 -- 166 2961 0.1485 0.1757 -- 100.0
X Ray Diffraction 4.5122 24.809 -- 145 2954 0.1537 0.1595 -- 97.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.077
f_dihedral_angle_d 14.758
f_angle_d 1.105
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3406
Nucleic Acid Atoms 0
Heterogen Atoms 24
Solvent Atoms 403

Software

Computing
Computing Package Purpose
SERGUI Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.8.1_1168) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.8.1_1168) refinement
PHASER model building
SERGUI data collection