X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

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

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 144.13 α = 90
b = 144.13 β = 90
c = 50.3 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 2011-07-11
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 46.65 97.2 0.04 -- -- 5.1 -- 333281 -- 1.7 --
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 80.8 0.57 -- 1.7 2.8 --

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 39.16 -- -- -- 316449 16821 97.17 -- 0.09692 0.09646 0.10555 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 -- 862 17334 0.316 0.33 -- 71.63
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 8.802
Anisotropic B[1][1] 0.04
Anisotropic B[1][2] 0.02
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.04
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.06
RMS Deviations
Key Refinement Restraint Deviation
r_xyhbond_nbd_refined 0.114
r_nbtor_other 0.085
r_dihedral_angle_4_deg 17.833
r_symmetry_hbond_other 0.183
r_symmetry_hbond_refined 0.616
r_symmetry_vdw_refined 0.321
r_nbd_refined 0.282
r_angle_other_deg 0.801
r_dihedral_angle_1_deg 6.041
r_dihedral_angle_2_deg 34.332
r_bond_other_d 0.001
r_angle_refined_deg 1.427
r_nbd_other 0.168
r_metal_ion_refined 0.068
r_rigid_bond_restr 2.031
r_sphericity_bonded 9.068
r_gen_planes_other 0.001
r_nbtor_refined 0.186
r_symmetry_vdw_other 0.235
r_chiral_restr 0.082
r_gen_planes_refined 0.009
r_sphericity_free 35.618
r_bond_refined_d 0.01
r_dihedral_angle_3_deg 11.963
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3449
Nucleic Acid Atoms 0
Heterogen Atoms 27
Solvent Atoms 781

Software

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