X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 298.0
Details 20% PEG3350, 0.2 M diammonium citrate, cryoprotectant: Paratone N, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 73.42 α = 90
b = 123.87 β = 90.97
c = 125.6 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2011-02
Diffraction Radiation
Monochromator Protocol
Rosenbaum-Rock high-resolution double-crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.979 APS 19-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
2.15 125.58 99.9 -- 0.061 -- 6.5 60928 60928 -- -- --
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)
2.15 2.27 100.0 0.301 0.301 2.4 6.6 8872

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 2.15 28.377 -- 0.0 -- 59609 3025 97.75 -- 0.1927 0.1903 0.2361 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 2.15 2.206 -- 232 4012 0.233 0.314 -- 94.25
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 30.4834
Anisotropic B[1][1] -1.09
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.59
Anisotropic B[2][2] 0.51
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.56
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_3_deg 16.374
r_dihedral_angle_2_deg 37.931
r_mcbond_other 0.271
r_mcangle_it 2.022
r_bond_other_d 0.001
r_scbond_it 3.142
r_angle_other_deg 1.013
r_gen_planes_other 0.001
r_gen_planes_refined 0.009
r_bond_refined_d 0.022
r_angle_refined_deg 1.717
r_chiral_restr 0.111
r_scangle_it 4.611
r_dihedral_angle_1_deg 6.75
r_dihedral_angle_4_deg 14.421
r_mcbond_it 1.118
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7401
Nucleic Acid Atoms 0
Heterogen Atoms 6
Solvent Atoms 485

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
SOLVE Structure Solution
REFMAC 5.5.0102 Structure Refinement
Software
Software Name Purpose
REFMAC5 version: 5.5.0102 refinement
SCALA version: 3.3.15 data reduction
pdb_extract version: 3.10 data extraction