X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 295.0
Details 0.1 M Tris-HCl, 12% PEG 8000, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 174.93 α = 90
b = 174.93 β = 90
c = 124.69 γ = 120
Symmetry
Space Group H 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2010-11-20
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-D 0.9794 APS 21-ID-D

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
1.95 50 96.8 -- -- -- -- -- 49243 -- 2.0 --

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
SAD 1.95 40.0 -- -- 50766 49243 2622 97.58 -- 0.1963 0.19482 0.22365 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 1.95 2.001 -- 160 3071 0.248 0.342 -- 83.57
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 30.546
Anisotropic B[1][1] -0.81
Anisotropic B[1][2] -0.41
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.81
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.22
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_it 1.232
r_chiral_restr 0.112
r_symmetry_vdw_refined 0.224
r_xyhbond_nbd_refined 0.128
r_sphericity_free 4.616
r_sphericity_bonded 4.349
r_bond_refined_d 0.013
r_dihedral_angle_2_deg 30.36
r_scbond_it 7.537
r_mcangle_it 1.87
r_gen_planes_refined 0.005
r_dihedral_angle_3_deg 18.256
r_symmetry_hbond_refined 0.15
r_rigid_bond_restr 8.545
r_angle_refined_deg 1.542
r_nbtor_refined 0.302
r_dihedral_angle_4_deg 17.822
r_dihedral_angle_1_deg 5.903
r_nbd_refined 0.204
r_scangle_it 5.74
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3048
Nucleic Acid Atoms 0
Heterogen Atoms 52
Solvent Atoms 291

Software

Software
Software Name Purpose
HKL-2000 data collection
PHASER phasing version: SAD
REFMAC refinement version: 5.2.0019
HKL-2000 data reduction
HKL-2000 data scaling