X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 293.0
Details 0.2M Na Citrate, 20% PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.54 α = 90
b = 65.48 β = 90
c = 113.02 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD beryllium lenses 2014-08-14
Diffraction Radiation
Monochromator Protocol
C(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F

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
1.75 30 100.0 0.085 -- -- 7.3 44613 44613 -- -3.0 --
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)
1.75 1.78 100.0 0.789 -- 2.8 7.2 --

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
SAD 1.75 30.0 -- 0.0 42391 42391 2155 99.9 -- 0.161 0.15913 0.19775 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 1.75 1.796 -- 141 3105 0.219 0.274 -- 99.94
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model ISOTROPIC
Mean Isotropic B 26.861
Anisotropic B[1][1] 1.39
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.35
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.96
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.645
r_angle_other_deg 0.84
r_bond_refined_d 0.015
r_dihedral_angle_1_deg 6.18
r_mcbond_it 1.481
r_scbond_it 2.447
r_dihedral_angle_4_deg 15.81
r_chiral_restr 0.107
r_long_range_B_other 7.46
r_dihedral_angle_2_deg 31.95
r_mcangle_it 2.29
r_scangle_other 3.707
r_bond_other_d 0.001
r_gen_planes_other 0.001
r_mcangle_other 2.289
r_long_range_B_refined 7.461
r_dihedral_angle_3_deg 11.47
r_gen_planes_refined 0.008
r_scbond_other 2.419
r_mcbond_other 1.481
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3074
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 458

Software

Software
Software Name Purpose
Blu-Ice data collection version: Max
PHENIX model building
REFMAC refinement version: 5.8.0069
HKL-2000 data reduction
HKL-2000 data scaling
PHENIX phasing