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 (QUANTUM 210) ADSC -- 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_plane_restr 0.004
f_chiral_restr 0.153
f_dihedral_angle_d 17.699
f_angle_d 1.549
f_bond_d 0.006
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

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