X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8.5
Details HANGING DROP. 100MM TRIS PH8.5, 200MM MG-FORMATE, 20% PEG 8K MICROSEEDED

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 143.19 α = 90
b = 86.28 β = 90
c = 63.09 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL (PILATUS 6M) DECTRIS DYNAMICALLY BENDABLE MIRROR 2012-04-27
Diffraction Radiation
Monochromator Protocol
LN2 COOLED FIXED-EXIT SI(111) MONOCHROMATOR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA -- SLS X06SA

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
1.75 47.34 99.9 0.08 -- -- 6.59 -- 79729 -- 2.0 26.55
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)
1.75 1.85 99.4 1.12 -- 1.7 6.62 --

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 1.749 47.985 -- 2.0 -- 79632 3989 99.89 -- 0.17 0.168 0.2076 --
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 1.7488 1.7701 -- 126 2580 0.2574 0.2844 -- 97.0
X Ray Diffraction 1.7701 1.7925 -- 124 2701 0.2481 0.2563 -- 100.0
X Ray Diffraction 1.7925 1.8161 -- 149 2673 0.2429 0.2715 -- 100.0
X Ray Diffraction 1.8161 1.841 -- 137 2682 0.2316 0.2517 -- 100.0
X Ray Diffraction 1.841 1.8673 -- 147 2645 0.2255 0.2323 -- 100.0
X Ray Diffraction 1.8673 1.8952 -- 141 2659 0.2153 0.2217 -- 100.0
X Ray Diffraction 1.8952 1.9248 -- 144 2693 0.2093 0.2472 -- 100.0
X Ray Diffraction 1.9248 1.9564 -- 142 2674 0.1963 0.2465 -- 100.0
X Ray Diffraction 1.9564 1.9901 -- 134 2673 0.1944 0.219 -- 100.0
X Ray Diffraction 1.9901 2.0263 -- 162 2658 0.1944 0.2317 -- 100.0
X Ray Diffraction 2.0263 2.0653 -- 144 2684 0.1799 0.212 -- 100.0
X Ray Diffraction 2.0653 2.1074 -- 135 2687 0.1777 0.1928 -- 100.0
X Ray Diffraction 2.1074 2.1532 -- 137 2676 0.1671 0.2065 -- 100.0
X Ray Diffraction 2.1532 2.2033 -- 145 2687 0.1629 0.1953 -- 100.0
X Ray Diffraction 2.2033 2.2584 -- 139 2702 0.1617 0.1902 -- 100.0
X Ray Diffraction 2.2584 2.3195 -- 131 2697 0.1717 0.2331 -- 100.0
X Ray Diffraction 2.3195 2.3877 -- 147 2691 0.1716 0.199 -- 100.0
X Ray Diffraction 2.3877 2.4648 -- 149 2683 0.1697 0.2382 -- 100.0
X Ray Diffraction 2.4648 2.5529 -- 132 2717 0.1743 0.2214 -- 100.0
X Ray Diffraction 2.5529 2.6551 -- 152 2675 0.1806 0.2253 -- 100.0
X Ray Diffraction 2.6551 2.7759 -- 162 2704 0.1827 0.2191 -- 100.0
X Ray Diffraction 2.7759 2.9223 -- 116 2724 0.1794 0.2458 -- 100.0
X Ray Diffraction 2.9223 3.1053 -- 140 2724 0.1793 0.2338 -- 100.0
X Ray Diffraction 3.1053 3.345 -- 136 2764 0.1722 0.2255 -- 100.0
X Ray Diffraction 3.345 3.6815 -- 167 2710 0.1495 0.1922 -- 100.0
X Ray Diffraction 3.6815 4.214 -- 153 2758 0.1336 0.17 -- 100.0
X Ray Diffraction 4.214 5.3081 -- 146 2791 0.1368 0.1616 -- 100.0
X Ray Diffraction 5.3081 48.003 -- 152 2931 0.1625 0.2148 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.07
f_dihedral_angle_d 14.698
f_angle_d 1.089
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4288
Nucleic Acid Atoms 504
Heterogen Atoms 44
Solvent Atoms 631

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
XDS Data Reduction (data scaling)
PHENIX Structure Solution
PHENIX (PHENIX.REFINE: DEV_1411) Structure Refinement
Software
Software Name Purpose
PHENIX version: (PHENIX.REFINE: DEV_1411) refinement
PHENIX model building