X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Counter Diffusion
pH 5
Temperature 298.0
Details 0.8 M ammonium sulphate, 0.1 M sodium acetate pH 5, counter diffusion, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 34.19 α = 90
b = 42.25 β = 90
c = 48.62 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 CCD ADSC_Q210 -- 2009-06-24
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM16 1.033 ESRF BM16

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
1.75 31.89 99.8 0.075 0.075 -- 6.9 7527 7512 0.0 0.0 16.921
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)
1.75 1.81 100.0 0.337 0.337 7.2 6.8 727

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 1.75 20.0 0.0 0.0 7096 7437 341 99.25 0.17279 0.173 0.17 0.228 RANDOM
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 1.75 1.795 -- 18 487 0.237 0.282 -- 94.39
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 21.523
Anisotropic B[1][1] 2.47
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.89
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.58
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.775
r_chiral_restr 0.165
r_scangle_it 10.096
r_dihedral_angle_1_deg 5.917
r_dihedral_angle_2_deg 42.802
r_gen_planes_refined 0.014
r_scbond_it 5.915
r_dihedral_angle_3_deg 16.4
r_mcbond_it 2.229
r_bond_refined_d 0.014
r_dihedral_angle_4_deg 36.745
r_mcangle_it 4.112
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 460
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 32

Software

Software
Software Name Purpose
SCALA data scaling
MOLREP phasing
REFMAC refinement
PDB_EXTRACT data extraction version: 3.005
DENZO data reduction
SCALEPACK data scaling