X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.4
Temperature 293.0
Details 23% PEG 3350, 0.1M Tris, 0.1M Magnesium Chloride, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 103.14 α = 90
b = 175.5 β = 90
c = 67.44 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 17-ID -- APS 17-ID

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
1.7 89.09 96.3 0.085 0.085 -- 5.2 -- 129416 2.0 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)
1.704 1.748 95.6 0.573 0.573 2.4 -- --

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 1.7 89.09 2.0 2.0 129416 122748 6503 96.34 -- 0.19922 0.19808 0.22093 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 1.704 1.748 -- 489 8903 0.239 0.289 -- 95.57
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.289
Anisotropic B[1][1] -0.6
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.51
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.11
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.707
r_scbond_it 1.801
r_mcangle_it 1.138
r_mcbond_it 0.662
r_nbd_refined 0.165
r_gen_planes_refined 0.003
r_chiral_restr 0.065
r_dihedral_angle_4_deg 11.892
r_dihedral_angle_3_deg 11.589
r_dihedral_angle_2_deg 31.706
r_dihedral_angle_1_deg 5.761
r_angle_refined_deg 0.945
r_bond_refined_d 0.005
r_nbtor_refined 0.298
r_xyhbond_nbd_refined 0.078
r_symmetry_vdw_refined 0.128
r_symmetry_hbond_refined 0.086
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10295
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 739

Software

Computing
Computing Package Purpose
HKL Data Reduction (intensity integration)
PHASER Structure Solution
REFMAC 5.2.0005 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0005 refinement