X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.2
Temperature 298.0
Details 0.1M sodium acetate, 200mM KCl, 25% PEG 8000, pH 4.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 46.16 α = 90
b = 46.16 β = 90
c = 171.2 γ = 90
Symmetry
Space Group P 43

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MAR CCD 165 mm -- 2010-07-01
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM14 1.0 ESRF BM14

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
2.3 50 99.0 -- -- -- -- -- n/a 1.0 1.0 --

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
SAD 2.3 40.629 -- 0.0 -- 15195 757 95.92 -- 0.2224 0.2198 0.2712 --
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 2.3001 2.4777 -- 143 2692 0.3254 0.4155 -- 90.0
X Ray Diffraction 2.4777 2.727 -- 142 2906 0.2861 0.3749 -- 96.0
X Ray Diffraction 2.727 3.1215 -- 160 2964 0.2572 0.2985 -- 98.0
X Ray Diffraction 3.1215 3.9322 -- 169 2949 0.1991 0.266 -- 99.0
X Ray Diffraction 3.9322 40.6354 -- 143 2927 0.1978 0.2312 -- 96.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 6.827
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 6.827
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -13.654
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.069
f_dihedral_angle_d 24.838
f_angle_d 1.208
f_bond_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1281
Nucleic Acid Atoms 855
Heterogen Atoms 20
Solvent Atoms 145

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
SHELXS Structure Solution
PHENIX (phenix.refine: 1.7_650) Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0072 refinement
SHELXS model building
HKL-2000 data collection