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 (PILATUS 6M) DECTRIS 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_sphericity_bonded 9.068
r_sphericity_free 35.618
r_rigid_bond_restr 2.031
r_nbd_refined 0.282
r_gen_planes_other 0.001
r_gen_planes_refined 0.009
r_chiral_restr 0.082
r_dihedral_angle_4_deg 17.833
r_dihedral_angle_3_deg 11.963
r_dihedral_angle_2_deg 34.332
r_dihedral_angle_1_deg 6.041
r_angle_other_deg 0.801
r_angle_refined_deg 1.427
r_bond_other_d 0.001
r_bond_refined_d 0.01
r_nbd_other 0.168
r_nbtor_refined 0.186
r_nbtor_other 0.085
r_xyhbond_nbd_refined 0.114
r_metal_ion_refined 0.068
r_symmetry_vdw_refined 0.321
r_symmetry_vdw_other 0.235
r_symmetry_hbond_refined 0.616
r_symmetry_hbond_other 0.183
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

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.7.0025 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.7.0025 refinement
MOLREP model building