X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 293.0
Details 0.1 M Tris/HCl pH 7.5, 1.0 M LiCl, 18 (w/v) % PEG 6000, 10 mM MgCl2, 10 mM GdmCl, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 60.99 α = 90
b = 60.99 β = 90
c = 213.87 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL PSI PILATUS 6M -- 2012-06-17
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL SAGITALLY FOCUSING SI(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X10SA 0.9785 SLS X10SA

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
2.2 50 99.4 0.054 -- -- 4.9 24236 24236 -- -- 39.9
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)
2.2 2.3 99.1 0.391 -- 4.8 5.2 2926

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 2.2 47.36 -- -- 23027 23027 1207 100.0 -- 0.22742 0.22536 0.26631 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 2.2 2.257 1652 87 1652 0.258 0.313 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 43.543
Anisotropic B[1][1] 0.79
Anisotropic B[1][2] 0.39
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.79
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.18
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_it 0.459
r_gen_planes_refined 0.004
r_bond_refined_d 0.009
r_scbond_it 1.66
r_angle_refined_deg 1.189
r_dihedral_angle_2_deg 34.102
r_chiral_restr 0.078
r_mcangle_it 0.923
r_scangle_it 2.95
r_dihedral_angle_3_deg 16.011
r_dihedral_angle_1_deg 4.79
r_dihedral_angle_4_deg 16.866
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2946
Nucleic Acid Atoms 0
Heterogen Atoms 32
Solvent Atoms 86

Software

Software
Software Name Purpose
PHASER phasing
REFMAC refinement version: 5.5.0102
XDS data reduction
XDS data scaling