X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.8
Details 60 MM NA2HPO4 PH 6.0; 15% PEG 1000

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 60.92 α = 90
b = 40.19 β = 90
c = 87.22 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 -- 2009-04-19
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I02 -- DIAMOND I02

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
1.5 43.61 92.4 0.07 -- -- 4.8 -- 32321 -- 3.0 7.99
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)
1.5 1.58 87.7 0.55 -- 3.6 4.5 --

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 1.498 26.589 -- 1.99 -- 31691 1623 90.06 -- 0.1852 0.1836 0.2137 --
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 1.4982 1.5422 -- 113 2046 0.3619 0.3967 -- 75.0
X Ray Diffraction 1.5422 1.592 -- 139 2542 0.2072 0.2629 -- 93.0
X Ray Diffraction 1.592 1.6489 -- 134 2604 0.186 0.2259 -- 94.0
X Ray Diffraction 1.6489 1.7149 -- 122 2561 0.1829 0.2441 -- 93.0
X Ray Diffraction 1.7149 1.7929 -- 135 2585 0.184 0.2386 -- 94.0
X Ray Diffraction 1.7929 1.8875 -- 138 2560 0.1971 0.219 -- 93.0
X Ray Diffraction 1.8875 2.0057 -- 120 2174 0.221 0.2245 -- 78.0
X Ray Diffraction 2.0057 2.1605 -- 142 2335 0.1869 0.2205 -- 85.0
X Ray Diffraction 2.1605 2.3778 -- 108 2478 0.17 0.2166 -- 88.0
X Ray Diffraction 2.3778 2.7215 -- 166 2665 0.1699 0.1993 -- 96.0
X Ray Diffraction 2.7215 3.4277 -- 169 2714 0.1582 0.209 -- 97.0
X Ray Diffraction 3.4277 26.5931 -- 137 2804 0.1572 0.1623 -- 94.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 14.758
Anisotropic B[1][1] 1.3025
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.248
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.5505
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.069
f_dihedral_angle_d 15.337
f_angle_d 1.026
f_bond_d 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1710
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 432

Software

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