X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 298.0
Details 2.5M SODIUM FORMATE, 100MM HEPES, PH 7.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 102.52 α = 90
b = 102.52 β = 90
c = 171.8 γ = 120
Symmetry
Space Group P 61 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2010-03-12
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X10SA -- 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
1.74 49.12 99.9 0.11 -- -- 13.08 -- 55318 -- -3.0 --
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)
1.74 1.84 99.9 0.8 -- 1.78 13.26 --

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 1.74 49.12 -- -- -- 50744 2713 96.71 -- 0.17678 0.17538 0.20256 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 1.74 1.785 -- 170 3414 0.332 0.31 -- 90.05
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 25.845
Anisotropic B[1][1] -0.2
Anisotropic B[1][2] -0.2
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.2
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.64
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.086
r_bond_refined_d 0.011
r_angle_refined_deg 1.453
r_dihedral_angle_2_deg 33.715
r_dihedral_angle_1_deg 6.619
r_gen_planes_other 0.001
r_bond_other_d 0.002
r_dihedral_angle_3_deg 13.111
r_angle_other_deg 0.766
r_dihedral_angle_4_deg 18.696
r_gen_planes_refined 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3020
Nucleic Acid Atoms 0
Heterogen Atoms 34
Solvent Atoms 412

Software

Software
Software Name Purpose
REFMAC refinement version: 5.7.0029
XDS data reduction
SADABS data scaling
PHASER phasing