X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details 0.2 M AMMONIUM ACETATE, 0.1 M BIS-TRIS PH 6.5, 22% WT/VOL PEG 3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 143.77 α = 90
b = 143.77 β = 90
c = 50.15 γ = 120
Symmetry
Space Group H 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M MIRRORS 2011-05-14
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I03 -- Diamond I03

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
0.85 46.52 91.9 0.04 -- -- 5.2 -- 312602 -- 2.0 --
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)
0.85 0.9 63.4 0.39 -- 2.6 2.6 --

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 0.85 46.57 -- -- -- 296806 15793 91.88 -- 0.09515 0.09464 0.10478 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 0.85 0.872 -- 671 13510 0.233 0.239 -- 56.29
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 7.363
Anisotropic B[1][1] -0.01
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.01
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.01
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.258
r_symmetry_vdw_other 0.16
r_sphericity_bonded 5.501
r_chiral_restr 0.085
r_xyhbond_nbd_other 0.076
r_dihedral_angle_4_deg 14.851
r_dihedral_angle_3_deg 11.393
r_bond_refined_d 0.009
r_xyhbond_nbd_refined 0.175
r_symmetry_vdw_refined 0.311
r_sphericity_free 28.712
r_angle_other_deg 0.786
r_gen_planes_refined 0.008
r_nbd_other 0.168
r_nbtor_other 0.085
r_metal_ion_refined 0.071
r_dihedral_angle_1_deg 6.144
r_dihedral_angle_2_deg 33.952
r_angle_refined_deg 1.404
r_bond_other_d 0.001
r_symmetry_hbond_refined 0.973
r_gen_planes_other 0.001
r_nbtor_refined 0.188
r_symmetry_hbond_other 0.338
r_rigid_bond_restr 1.621
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3451
Nucleic Acid Atoms 0
Heterogen Atoms 17
Solvent Atoms 817

Software

Software
Software Name Purpose
REFMAC refinement version: 5.7.0025
XDS data reduction
SCALA data scaling
MOLREP phasing