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, 0.00067 M PROTEIN, 0.012 M LANTHANIDE COMPLEX, 293 K, 3-7 DAYS

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 77.51 α = 90
b = 77.51 β = 90
c = 38.48 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 QUANTUM 315r MIRRORS 2010-07-01
Diffraction Radiation
Monochromator Protocol
EITHER 111 OR 311 SILICON SINGLE CRISTALS 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
1.21 38.75 99.7 0.05 -- -- 7.6 -- 36469 -- 3.0 10.84
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)
1.21 1.27 98.8 0.6 -- 1.3 7.2 --

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 1.207 38.755 -- 1.35 -- 36424 1823 99.59 -- 0.1591 0.1581 0.1783 --
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 1.2071 1.2397 -- 136 2576 0.2342 0.2749 -- 98.0
X Ray Diffraction 1.2397 1.2762 -- 138 2627 0.2115 0.1922 -- 100.0
X Ray Diffraction 1.2762 1.3174 -- 138 2620 0.1867 0.2059 -- 100.0
X Ray Diffraction 1.3174 1.3645 -- 138 2625 0.1784 0.2069 -- 100.0
X Ray Diffraction 1.3645 1.4191 -- 139 2649 0.1611 0.2138 -- 100.0
X Ray Diffraction 1.4191 1.4837 -- 138 2629 0.1464 0.1596 -- 100.0
X Ray Diffraction 1.4837 1.562 -- 140 2646 0.1367 0.1625 -- 100.0
X Ray Diffraction 1.562 1.6598 -- 141 2666 0.1349 0.1545 -- 100.0
X Ray Diffraction 1.6598 1.788 -- 139 2660 0.1329 0.1882 -- 100.0
X Ray Diffraction 1.788 1.9679 -- 141 2674 0.1405 0.1871 -- 100.0
X Ray Diffraction 1.9679 2.2526 -- 143 2698 0.1438 0.1642 -- 100.0
X Ray Diffraction 2.2526 2.838 -- 142 2724 0.1551 0.1816 -- 100.0
X Ray Diffraction 2.838 38.7745 -- 150 2807 0.1707 0.1692 -- 97.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 13.35
Anisotropic B[1][1] 0.073
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.073
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.1459
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.252
f_bond_d 0.008
f_chiral_restr 0.088
f_dihedral_angle_d 25.572
f_plane_restr 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1000
Nucleic Acid Atoms 0
Heterogen Atoms 87
Solvent Atoms 146

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE)
XDS data reduction version: JANUARY 30 2009
SCALA data scaling version: 3.3.16
SHARP phasing