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 = 136.09 α = 90
b = 301.3 β = 113.33
c = 144.58 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 MPG/DESY, HAMBURG BEAMLINE BW6 1.0 MPG/DESY, HAMBURG BW6

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
3 50 98.0 0.118 -- -- 3.2 207849 207849 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)
3.0 3.04 99.0 0.499 -- 1.9 -- --

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 3.0 15.0 -- -- -- 197382 10427 97.7 -- 0.20536 0.20412 0.22907 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 3.0 3.075 -- 767 14200 0.313 0.333 -- 99.09
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 61.7
Anisotropic B[1][1] 5.37
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -2.0
Anisotropic B[2][2] -5.98
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.07
RMS Deviations
Key Refinement Restraint Deviation
r_sphericity_free 35.757
r_scbond_it 1.901
r_scangle_other 2.287
r_mcbond_it 1.91
r_mcangle_other 2.501
r_angle_other_deg 0.695
r_sphericity_bonded 5.414
r_chiral_restr 0.053
r_mcangle_it 2.501
r_long_range_B_other 2.901
r_angle_refined_deg 0.899
r_dihedral_angle_4_deg 14.223
r_gen_planes_other 0.001
r_bond_refined_d 0.004
r_dihedral_angle_1_deg 5.187
r_dihedral_angle_2_deg 34.272
r_dihedral_angle_3_deg 14.387
r_gen_planes_refined 0.003
r_rigid_bond_restr 1.151
r_bond_other_d 0.002
r_scbond_other 1.9
r_mcbond_other 1.91
r_long_range_B_refined 2.918
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 49333
Nucleic Acid Atoms 0
Heterogen Atoms 150
Solvent Atoms 276

Software

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