X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.8
Temperature 293.0
Details 20 MM MGAC2, 13% MPD, PH 6.8, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 134.72 α = 90
b = 301.36 β = 112.81
c = 144.74 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 -- 2013-06-08
Diffraction Radiation
Monochromator Protocol
LN2 COOLED FIXED-EXIT. SI(111) MONOCHROMATOR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA -- 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
2.1 30 98.8 0.044 -- -- 3.1 -- 608720 -- 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)
2.1 2.2 99.4 0.568 -- 2.9 -- --

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 2.1 15.0 -- -- 608720 578284 30436 98.9 -- 0.186 0.185 0.198 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 2.1 2.15 -- 2216 42121 0.307 0.315 -- 99.43
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 46.42
Anisotropic B[1][1] 1.89
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.5
Anisotropic B[2][2] -3.72
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.51
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_other 0.001
r_scbond_other 1.771
r_chiral_restr 0.096
r_angle_other_deg 0.744
r_mcbond_other 1.238
r_rigid_bond_restr 1.892
r_sphericity_free 23.417
r_scangle_other 1.514
r_dihedral_angle_3_deg 17.436
r_dihedral_angle_4_deg 18.338
r_long_range_B_refined 2.366
r_sphericity_bonded 4.251
r_angle_refined_deg 1.095
r_bond_refined_d 0.005
r_mcangle_it 1.289
r_dihedral_angle_2_deg 36.265
r_long_range_B_other 2.056
r_mcbond_it 1.238
r_bond_other_d 0.001
r_mcangle_other 1.289
r_dihedral_angle_1_deg 6.174
r_gen_planes_refined 0.003
r_scbond_it 1.771
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 49336
Nucleic Acid Atoms 0
Heterogen Atoms 23
Solvent Atoms 3472

Software

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