X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.2
Details 8% PEG-1000, 100 MM NAK PHOSPHATE, PH 6.2

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 40.28 α = 90
b = 87.25 β = 91.5
c = 62.63 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2010-03-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 -- ESRF ID14-4

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
1.59 43.62 99.2 0.06 -- -- 3.7 -- 57763 -- 2.0 25.1
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)
1.59 1.69 96.5 0.61 -- 2.19 3.6 --

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 1.589 40.266 -- 1.99 -- 57753 2935 99.2 -- 0.1803 0.1786 0.212 --
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 1.5891 1.6151 -- 135 2308 0.2602 0.2871 -- 88.0
X Ray Diffraction 1.6151 1.643 -- 124 2634 0.2423 0.2499 -- 100.0
X Ray Diffraction 1.643 1.6729 -- 144 2643 0.231 0.2942 -- 100.0
X Ray Diffraction 1.6729 1.705 -- 143 2586 0.2182 0.2867 -- 100.0
X Ray Diffraction 1.705 1.7398 -- 147 2613 0.2103 0.2201 -- 100.0
X Ray Diffraction 1.7398 1.7777 -- 142 2622 0.1927 0.2701 -- 100.0
X Ray Diffraction 1.7777 1.819 -- 143 2633 0.1927 0.2266 -- 100.0
X Ray Diffraction 1.819 1.8645 -- 135 2596 0.1865 0.2358 -- 100.0
X Ray Diffraction 1.8645 1.9149 -- 158 2650 0.1913 0.2513 -- 100.0
X Ray Diffraction 1.9149 1.9713 -- 122 2596 0.1775 0.2295 -- 100.0
X Ray Diffraction 1.9713 2.0349 -- 148 2663 0.174 0.2307 -- 100.0
X Ray Diffraction 2.0349 2.1076 -- 141 2611 0.1626 0.2073 -- 100.0
X Ray Diffraction 2.1076 2.192 -- 133 2602 0.1629 0.1888 -- 100.0
X Ray Diffraction 2.192 2.2918 -- 135 2665 0.1569 0.2264 -- 100.0
X Ray Diffraction 2.2918 2.4126 -- 124 2628 0.1676 0.202 -- 100.0
X Ray Diffraction 2.4126 2.5637 -- 141 2613 0.1754 0.2302 -- 100.0
X Ray Diffraction 2.5637 2.7616 -- 134 2645 0.1825 0.2365 -- 100.0
X Ray Diffraction 2.7616 3.0394 -- 152 2614 0.1852 0.2244 -- 100.0
X Ray Diffraction 3.0394 3.479 -- 150 2640 0.1633 0.1736 -- 100.0
X Ray Diffraction 3.479 4.3824 -- 137 2623 0.1405 0.1565 -- 99.0
X Ray Diffraction 4.3824 40.2791 -- 147 2633 0.1701 0.1807 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 1.5699
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.1576
Anisotropic B[2][2] -3.6616
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.0917
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 0.982
f_chiral_restr 0.069
f_plane_restr 0.004
f_bond_d 0.006
f_dihedral_angle_d 15.763
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3339
Nucleic Acid Atoms 0
Heterogen Atoms 50
Solvent Atoms 672

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE)
XDS data reduction
XDS data scaling
AMoRE phasing