X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 0.2 M NA2SO4, 0.1 M BIS-TRIS-PROPANE PH 7.5, 20% PEG3350, 10% ETHYLENE-GLYCOL, 0.5% DMSO, SITTING DROP, VAPOR DIFFUSION, 277 K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 99.32 α = 90
b = 99.32 β = 90
c = 80.12 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2004-11-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA -- 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
1.8 49.74 99.8 0.07 -- -- 5.64 -- 41795 -- 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)
1.8 1.9 99.7 0.36 -- 3.05 3.91 --

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 1.8 86.07 -- -- -- 39487 2128 99.9 -- 0.159 0.157 0.183 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 1.8 1.85 -- 166 2889 0.214 0.301 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 25.91
Anisotropic B[1][1] 0.15
Anisotropic B[1][2] 0.08
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.15
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.23
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 5.89
r_scbond_it 5.166
r_mcangle_it 3.298
r_mcbond_it 2.522
r_nbd_refined 0.203
r_gen_planes_other 0.001
r_gen_planes_refined 0.004
r_chiral_restr 0.068
r_dihedral_angle_4_deg 16.683
r_dihedral_angle_3_deg 11.9
r_dihedral_angle_2_deg 33.455
r_dihedral_angle_1_deg 5.158
r_angle_other_deg 0.818
r_angle_refined_deg 1.602
r_bond_other_d 0.001
r_bond_refined_d 0.009
r_nbd_other 0.171
r_nbtor_refined 0.179
r_nbtor_other 0.078
r_xyhbond_nbd_refined 0.149
r_symmetry_vdw_refined 0.225
r_symmetry_vdw_other 0.334
r_symmetry_hbond_refined 0.262
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2214
Nucleic Acid Atoms 0
Heterogen Atoms 33
Solvent Atoms 290

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.2.0005 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0005 refinement
PHASER model building