X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.2
Details 10-15% PEG-1000, 50 MM NAKPHOSPHATE, PH 6.2

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 37.62 α = 90
b = 78.77 β = 118.06
c = 39.63 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 -- 2008-10-04
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
1.3 39.38 99.0 0.04 -- -- 3.6 -- 49540 -- 2.0 20.2
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)
1.3 1.38 99.0 0.49 -- 2.6 3.8 --

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 1.3 33.064 -- 2.0 -- 49527 2552 99.09 -- 0.2005 0.1993 0.2232 --
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 1.3001 1.3251 -- 130 2595 0.2861 0.2744 -- 98.0
X Ray Diffraction 1.3251 1.3522 -- 176 2555 0.273 0.3 -- 100.0
X Ray Diffraction 1.3522 1.3816 -- 128 2646 0.2699 0.2823 -- 100.0
X Ray Diffraction 1.3816 1.4137 -- 117 2643 0.2556 0.2772 -- 100.0
X Ray Diffraction 1.4137 1.449 -- 151 2618 0.2509 0.2512 -- 99.0
X Ray Diffraction 1.449 1.4882 -- 138 2602 0.2369 0.2571 -- 100.0
X Ray Diffraction 1.4882 1.532 -- 152 2616 0.2346 0.2538 -- 100.0
X Ray Diffraction 1.532 1.5815 -- 161 2621 0.2256 0.2323 -- 100.0
X Ray Diffraction 1.5815 1.638 -- 140 2615 0.2217 0.2662 -- 100.0
X Ray Diffraction 1.638 1.7036 -- 134 2622 0.221 0.2087 -- 100.0
X Ray Diffraction 1.7036 1.7811 -- 156 2592 0.2021 0.283 -- 100.0
X Ray Diffraction 1.7811 1.875 -- 138 2651 0.2039 0.2201 -- 99.0
X Ray Diffraction 1.875 1.9925 -- 125 2627 0.196 0.2485 -- 99.0
X Ray Diffraction 1.9925 2.1463 -- 164 2587 0.1825 0.2194 -- 99.0
X Ray Diffraction 2.1463 2.3622 -- 134 2635 0.182 0.2142 -- 99.0
X Ray Diffraction 2.3622 2.7039 -- 132 2644 0.193 0.2021 -- 99.0
X Ray Diffraction 2.7039 3.406 -- 143 2641 0.1801 0.2014 -- 100.0
X Ray Diffraction 3.406 33.0748 -- 133 2465 0.1775 0.1958 -- 92.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 1.4549
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 2.3241
Anisotropic B[2][2] 0.651
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.1059
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.153
f_angle_d 1.549
f_bond_d 0.006
f_dihedral_angle_d 17.699
f_plane_restr 0.004
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1714
Nucleic Acid Atoms 0
Heterogen Atoms 14
Solvent Atoms 344

Software

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