X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 298.15
Details 0.1 M magnesium acetate, 0.1 M Bis-Tris-HCl, 35% PEG550 MME

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 40.64 α = 90
b = 58.14 β = 90
c = 101.2 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 -- 2014-05-28
Diffraction Radiation
Monochromator Protocol
Side scattering I-beam bent single crystal, asymmetric cut 4.9650 degrees SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL7-1 1.12709 SSRL BL7-1

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
1.45 38.17 99.2 0.033 -- -- 3.53 42861 42861 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)
1.451 1.49 99.2 0.387 -- 3.47 3.48 --

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 1.451 38.168 -- 1.09 -- 42861 2111 97.36 -- 0.1497 0.1487 0.1687 Random selection
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 1.4513 1.469 -- 126 2623 0.2389 0.2586 -- 96.0
X Ray Diffraction 1.469 1.4876 -- 143 2686 0.2244 0.2605 -- 97.0
X Ray Diffraction 1.4876 1.5072 -- 133 2751 0.2143 0.2408 -- 97.0
X Ray Diffraction 1.5072 1.5279 -- 129 2673 0.1885 0.2398 -- 97.0
X Ray Diffraction 1.5279 1.5497 -- 132 2704 0.1929 0.2247 -- 97.0
X Ray Diffraction 1.5497 1.5728 -- 143 2720 0.1781 0.2152 -- 97.0
X Ray Diffraction 1.5728 1.5974 -- 134 2676 0.176 0.2216 -- 97.0
X Ray Diffraction 1.5974 1.6236 -- 154 2770 0.1614 0.1875 -- 98.0
X Ray Diffraction 1.6236 1.6516 -- 151 2672 0.1661 0.2385 -- 98.0
X Ray Diffraction 1.6516 1.6816 -- 110 2716 0.155 0.1653 -- 97.0
X Ray Diffraction 1.6816 1.714 -- 122 2766 0.1563 0.1863 -- 98.0
X Ray Diffraction 1.714 1.7489 -- 111 2731 0.1541 0.1586 -- 98.0
X Ray Diffraction 1.7489 1.787 -- 140 2721 0.1494 0.1826 -- 98.0
X Ray Diffraction 1.787 1.8285 -- 152 2689 0.149 0.1784 -- 98.0
X Ray Diffraction 1.8285 1.8743 -- 129 2798 0.1481 0.1549 -- 98.0
X Ray Diffraction 1.8743 1.9249 -- 150 2698 0.1475 0.1572 -- 98.0
X Ray Diffraction 1.9249 1.9816 -- 139 2706 0.1453 0.1478 -- 98.0
X Ray Diffraction 1.9816 2.0455 -- 155 2718 0.146 0.158 -- 98.0
X Ray Diffraction 2.0455 2.1186 -- 121 2739 0.1337 0.1639 -- 98.0
X Ray Diffraction 2.1186 2.2035 -- 145 2748 0.1402 0.1625 -- 98.0
X Ray Diffraction 2.2035 2.3037 -- 144 2702 0.143 0.1422 -- 98.0
X Ray Diffraction 2.3037 2.4252 -- 152 2724 0.143 0.177 -- 97.0
X Ray Diffraction 2.4252 2.5771 -- 154 2684 0.154 0.18 -- 98.0
X Ray Diffraction 2.5771 2.776 -- 162 2680 0.1515 0.1679 -- 97.0
X Ray Diffraction 2.776 3.0553 -- 170 2655 0.1461 0.164 -- 97.0
X Ray Diffraction 3.0553 3.4971 -- 151 2668 0.1388 0.1496 -- 96.0
X Ray Diffraction 3.4971 4.405 -- 134 2700 0.1177 0.1467 -- 97.0
X Ray Diffraction 4.405 38.1817 -- 143 2637 0.1466 0.1548 -- 95.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_angle_d 1.173
f_bond_d 0.006
f_chiral_restr 0.079
f_dihedral_angle_d 11.75
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1928
Nucleic Acid Atoms 0
Heterogen Atoms 31
Solvent Atoms 269

Software

Software
Software Name Purpose
PHENIX refinement version: 1.9_1692
PHASER phasing
XSCALE data scaling version: July 4, 2012
XDS data scaling version: November 11, 2013