X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 8% PEG 6000, 100 MM MGCL2, 100 MM MES PH 6.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 169.44 α = 90
b = 169.44 β = 90
c = 71.04 γ = 120
Symmetry
Space Group P 64

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2006-06-17
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
2.2 50 98.9 0.08 0.08 -- 3.6 -- 58631 -- 2.5 --
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 95.6 0.54 0.54 2.5 2.9 --

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 2.21 43.73 -- -- -- 55698 2932 100.0 -- 0.187 0.185 0.216 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 2.21 2.26 -- 210 3982 0.301 0.363 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 43.99
Anisotropic B[1][1] -0.33
Anisotropic B[1][2] -0.16
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.33
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.49
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 6.456
r_symmetry_vdw_other 0.27
r_mcangle_it 1.148
r_scbond_it 1.746
r_angle_refined_deg 1.493
r_bond_refined_d 0.014
r_angle_other_deg 0.843
r_mcbond_other 0.151
r_nbd_other 0.191
r_xyhbond_nbd_refined 0.225
r_symmetry_vdw_refined 0.111
r_gen_planes_other 0.001
r_nbtor_refined 0.178
r_gen_planes_refined 0.005
r_scangle_it 2.724
r_dihedral_angle_4_deg 19.794
r_metal_ion_refined 0.039
r_chiral_restr 0.085
r_symmetry_hbond_refined 0.148
r_nbtor_other 0.088
r_nbd_refined 0.195
r_dihedral_angle_3_deg 16.902
r_mcbond_it 0.806
r_bond_other_d 0.001
r_dihedral_angle_2_deg 36.31
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5359
Nucleic Acid Atoms 121
Heterogen Atoms 32
Solvent Atoms 344

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0005
XDS data reduction
XSCALE data scaling
PHASER phasing