X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.4
Temperature 298.0
Details 0.1M Sodium Acetate trihydrate pH 5.4, 0.2M Ammonium Acetate, 30% w/v Polyethylene Glycol 4000, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 65.95 α = 90
b = 69.58 β = 90
c = 85.67 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2011-01-19
Diffraction Radiation
Monochromator Protocol
KOHZU SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.2.1 0.97390 ALS 8.2.1

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
1.57 41.79 99.7 0.085 -- -- 6.36 56246 56098 2.0 2.0 15.4
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)
1.565 1.61 98.3 0.31 -- 3.7 4.75 7959

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 1.565 41.786 -- 1.34 56018 56016 2844 99.57 -- 0.1496 0.148 0.1885 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 1.565 1.592 2530 137 2530 0.2035 0.2693 -- 96.0
X Ray Diffraction 1.592 1.6209 2614 128 2614 0.1805 0.2292 -- 98.0
X Ray Diffraction 1.6209 1.6521 2619 140 2619 0.1911 0.2725 -- 99.0
X Ray Diffraction 1.6521 1.6859 2601 150 2601 0.1707 0.2313 -- 100.0
X Ray Diffraction 1.6859 1.7225 2609 152 2609 0.1526 0.2145 -- 100.0
X Ray Diffraction 1.7225 1.7626 2634 137 2634 0.1361 0.2019 -- 100.0
X Ray Diffraction 1.7626 1.8067 2653 141 2653 0.1329 0.1935 -- 100.0
X Ray Diffraction 1.8067 1.8555 2641 135 2641 0.1284 0.1868 -- 100.0
X Ray Diffraction 1.8555 1.9101 2660 126 2660 0.1249 0.1933 -- 100.0
X Ray Diffraction 1.9101 1.9718 2658 135 2658 0.1314 0.2003 -- 100.0
X Ray Diffraction 1.9718 2.0422 2664 161 2664 0.1362 0.1966 -- 100.0
X Ray Diffraction 2.0422 2.124 2648 141 2648 0.138 0.1685 -- 100.0
X Ray Diffraction 2.124 2.2207 2647 129 2647 0.1407 0.1856 -- 100.0
X Ray Diffraction 2.2207 2.3377 2652 174 2652 0.1259 0.1738 -- 100.0
X Ray Diffraction 2.3377 2.4842 2679 129 2679 0.1279 0.1852 -- 100.0
X Ray Diffraction 2.4842 2.6759 2694 138 2694 0.1419 0.1712 -- 100.0
X Ray Diffraction 2.6759 2.9452 2670 137 2670 0.1461 0.1761 -- 100.0
X Ray Diffraction 2.9452 3.3712 2733 128 2733 0.1487 0.1853 -- 100.0
X Ray Diffraction 3.3712 4.2467 2717 156 2717 0.1418 0.1671 -- 100.0
X Ray Diffraction 4.2467 41.8006 2849 170 2849 0.1821 0.1927 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model anisotropic/isotropic
Anisotropic B[1][1] 0.6227
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.4968
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.1195
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.009
f_chiral_restr 0.083
f_dihedral_angle_d 16.452
f_angle_d 1.515
f_bond_d 0.014
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3236
Nucleic Acid Atoms 0
Heterogen Atoms 112
Solvent Atoms 749

Software

Computing
Computing Package Purpose
mosflm Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
Phaser Structure Solution
PHENIX (phenix.refine: dev_794) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: dev_794) refinement
Phaser model building
mosflm data collection