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 = 134.33 α = 90
b = 300.52 β = 112.66
c = 145.19 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 -- 2015-07-11
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 30 96.9 0.08 -- -- 3.0 -- 251975 -- -- --
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 97.0 0.587 -- 2.5 -- --

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 -- -- -- 239376 12599 96.99 -- 0.18734 0.186 0.21305 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 -- 896 17027 0.308 0.336 -- 96.92
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 67.261
Anisotropic B[1][1] 5.63
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.94
Anisotropic B[2][2] -7.17
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.43
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_it 2.51
r_mcangle_it 3.35
r_dihedral_angle_4_deg 14.349
r_angle_refined_deg 0.921
r_sphericity_bonded 15.974
r_bond_refined_d 0.004
r_bond_other_d 0.002
r_gen_planes_refined 0.003
r_angle_other_deg 0.772
r_scangle_other 3.101
r_scbond_other 2.509
r_rigid_bond_restr 1.022
r_dihedral_angle_1_deg 4.916
r_dihedral_angle_3_deg 14.134
r_long_range_B_other 3.875
r_chiral_restr 0.049
r_long_range_B_refined 3.884
r_scbond_it 2.509
r_mcbond_other 2.51
r_dihedral_angle_2_deg 34.077
r_gen_planes_other 0.001
r_mcangle_other 3.35
r_sphericity_free 38.66
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 49392
Nucleic Acid Atoms 0
Heterogen Atoms 214
Solvent Atoms 277

Software

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