X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 4.6
Details 0.1 M SODIUM ACETATE PH 4.6, 0.4-1.5 M SODIUM CHLORIDE, 0.00046 M PROTEIN, 0.001.4 M LANTHANIDE COMPLEX, 293 K, 3-7 DAYS

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 77.76 α = 90
b = 77.76 β = 90
c = 37.9 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD MIRRORS 2009-11-06
Diffraction Radiation
Monochromator Protocol
EITHER SI111 OR SI311 CRYSTALS MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM30A -- ESRF BM30A

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
1.51 38.88 99.7 0.05 -- -- 13.6 -- 18899 -- 3.0 13.89
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)
1.51 1.59 98.0 0.32 -- 2.4 12.7 --

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
MAD 1.507 31.203 -- 1.38 -- 18848 963 99.66 -- 0.1576 0.1564 0.1792 --
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 1.5065 1.586 -- 136 2447 0.1806 0.2182 -- 98.0
X Ray Diffraction 1.586 1.6853 -- 137 2505 0.1456 0.1753 -- 100.0
X Ray Diffraction 1.6853 1.8154 -- 138 2527 0.1506 0.1525 -- 100.0
X Ray Diffraction 1.8154 1.9981 -- 142 2530 0.1442 0.1791 -- 100.0
X Ray Diffraction 1.9981 2.2872 -- 148 2546 0.1437 0.188 -- 100.0
X Ray Diffraction 2.2872 2.8813 -- 137 2592 0.1524 0.1838 -- 100.0
X Ray Diffraction 2.8813 31.21 -- 125 2738 0.1671 0.1744 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 15.87
Anisotropic B[1][1] -0.398
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.398
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.796
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.011
f_plane_restr 0.006
f_chiral_restr 0.09
f_angle_d 1.384
f_dihedral_angle_d 26.479
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1000
Nucleic Acid Atoms 0
Heterogen Atoms 76
Solvent Atoms 148

Software

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