X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.9
Temperature 293.0
Details 20 mM magnesium acetate, 0.1 M MES, 12% MPD, pH 6.9, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 137.08 α = 90
b = 301.71 β = 113.69
c = 146.23 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL PSI PILATUS 6M -- 2011-07-09
Diffraction Radiation
Monochromator Protocol
LN2-cooled fixed-exit Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA 1.0 SLS X06SA

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
2.8 40 98.6 0.112 -- -- 3.3 266454 262724 2.0 2.0 --
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)
2.8 2.9 92.0 0.474 -- -- -- --

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 2.8 15.0 -- -- 249586 249586 13137 98.92 -- 0.17491 0.17237 0.22379 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 2.8 2.872 -- 864 16399 0.305 0.379 -- 91.22
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 51.473
Anisotropic B[1][1] 4.08
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.67
Anisotropic B[2][2] -7.35
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.58
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 17.296
r_gen_planes_refined 0.006
r_chiral_restr 0.104
r_bond_refined_d 0.013
r_angle_refined_deg 1.657
r_dihedral_angle_2_deg 37.175
r_dihedral_angle_1_deg 6.507
r_dihedral_angle_3_deg 17.023
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 49538
Nucleic Acid Atoms 0
Heterogen Atoms 82
Solvent Atoms 1336

Software

Software
Software Name Purpose
XDS data scaling
REFMAC refinement
XDS data reduction
XSCALE data scaling
REFMAC phasing