X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 277.0
Details 0.1 M MMT buffer, 100 mM Sodium Sulphate, 25% PEG 1500, pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 34.76 α = 110.47
b = 34.78 β = 105.6
c = 41.86 γ = 96
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 2M -- 2012-09-15
Diffraction Radiation
Monochromator Protocol
Si(111) double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I04-1 0.92 Diamond I04-1

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
1.38 37.05 83.5 0.049 -- -- 3.8 112030 31070 -- -- --
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)
1.38 1.41 83.8 0.37 -- 4.0 3.8 1570

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 1.38 25.79 -- 0.0 -- 29524 1470 83.53 -- 0.1505 0.1489 0.1815 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 1.382 1.418 -- 98 2049 0.179 0.203 -- 83.06
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 15.78
Anisotropic B[1][1] 0.02
Anisotropic B[1][2] 0.04
Anisotropic B[1][3] 0.02
Anisotropic B[2][2] -0.02
Anisotropic B[2][3] -0.02
Anisotropic B[3][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_2_deg 20.565
r_dihedral_angle_3_deg 13.517
r_chiral_restr 0.177
r_gen_planes_refined 0.014
r_gen_planes_other 0.002
r_angle_other_deg 1.106
r_angle_refined_deg 2.696
r_dihedral_angle_1_deg 5.032
r_bond_other_d 0.002
r_dihedral_angle_4_deg 22.762
r_bond_refined_d 0.03
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1258
Nucleic Acid Atoms 0
Heterogen Atoms 45
Solvent Atoms 78

Software

Software
Software Name Purpose
MOSFLM data reduction
Aimless data scaling version: 0.1.26
PHASER phasing version: 2.5.1
REFMAC refinement
PDB_EXTRACT data extraction version: 3.11
GDA data collection