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 = 136.61 α = 90
b = 299.76 β = 113.06
c = 144.95 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
2.4 50 98.6 0.061 -- -- 3.1 410647 410647 -- -- --
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)
2.4 2.5 99.2 0.559 -- 2.3 -- --

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 2.4 15.0 -- -- -- 390114 20533 98.67 -- 0.20875 0.20794 0.22403 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 2.4 2.461 -- 1486 28237 0.346 0.367 -- 99.32
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 58.743
Anisotropic B[1][1] 2.6
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.56
Anisotropic B[2][2] -5.11
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.01
RMS Deviations
Key Refinement Restraint Deviation
r_long_range_B_other 2.114
r_sphericity_bonded 3.784
r_bond_refined_d 0.004
r_dihedral_angle_4_deg 14.201
r_dihedral_angle_1_deg 5.186
r_long_range_B_refined 2.193
r_bond_other_d 0.002
r_scbond_it 1.385
r_mcangle_it 1.761
r_dihedral_angle_2_deg 34.425
r_angle_refined_deg 0.908
r_sphericity_free 25.694
r_chiral_restr 0.051
r_dihedral_angle_3_deg 14.705
r_scangle_other 1.524
r_scbond_other 1.385
r_rigid_bond_restr 0.733
r_angle_other_deg 0.756
r_mcbond_other 1.432
r_mcangle_other 1.761
r_gen_planes_other 0.001
r_gen_planes_refined 0.003
r_mcbond_it 1.432
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 49277
Nucleic Acid Atoms 0
Heterogen Atoms 177
Solvent Atoms 1157

Software

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