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 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_plane_restr 0.006
f_chiral_restr 0.09
f_dihedral_angle_d 26.479
f_angle_d 1.384
f_bond_d 0.011
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

Computing
Computing Package Purpose
XDS, VERSION JANUARY 30, 2009 Data Reduction (intensity integration)
SCALA, VERSION 3.3.16 Data Reduction (data scaling)
SHARP Structure Solution
PHENIX (PHENIX.REFINE) Structure Refinement
Software
Software Name Purpose
PHENIX version: (PHENIX.REFINE) refinement
SHARP model building