X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.8
Temperature 293.0
Details 20 mM MgAC2, 13% MPD, 0.1 M MES

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 135.01 α = 90
b = 300.43 β = 112.72
c = 144.37 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 -- 2014-04-12
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 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 50 97.2 0.08 -- -- 3.1 252494 252494 -- -- --
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 97.1 0.571 -- 2.1 -- --

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 -- -- -- 239868 12625 97.31 -- 0.17769 0.17633 0.20334 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 2.87 -- 899 17087 0.303 0.339 -- 96.92
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 68.131
Anisotropic B[1][1] 3.4
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.5
Anisotropic B[2][2] -6.38
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.36
RMS Deviations
Key Refinement Restraint Deviation
r_rigid_bond_restr 1.015
r_gen_planes_refined 0.002
r_dihedral_angle_4_deg 14.412
r_angle_refined_deg 0.853
r_scbond_it 2.636
r_bond_refined_d 0.004
r_dihedral_angle_3_deg 14.453
r_bond_other_d 0.001
r_dihedral_angle_2_deg 34.521
r_dihedral_angle_1_deg 5.171
r_angle_other_deg 0.68
r_chiral_restr 0.049
r_scangle_other 3.287
r_sphericity_free 28.53
r_sphericity_bonded 18.117
r_mcbond_it 2.621
r_scbond_other 2.636
r_mcangle_it 3.525
r_long_range_B_refined 4.01
r_gen_planes_other 0.001
r_mcangle_other 3.525
r_long_range_B_other 3.994
r_mcbond_other 2.621
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 49374
Nucleic Acid Atoms 0
Heterogen Atoms 34
Solvent Atoms 278

Software

Software
Software Name Purpose
XDS data reduction
XSCALE data scaling
REFMAC phasing
REFMAC refinement version: 5.7.0032