X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Batch Crystallization Under Oil
pH 6
Temperature 298.0
Details 11% (w/v) PEG 8000, 100 mM BisTris (pH 6.0), 345 mM Tetramethylammonium chloride, BATCH CRYSTALLIZATION UNDER OIL, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 84.64 α = 90
b = 157.83 β = 90
c = 244.95 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 300 mm CCD -- 2012-06-10
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-D 1.12706 APS 21-ID-D

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
2.4 50 99.8 0.069 -- -- 7.2 128300 128103 -- -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)
2.4 2.46 99.8 0.405 -- 5.2 7.1 --

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 2.4 49.66 -- -- -- 121746 6448 99.62 -- 0.18568 0.18369 0.22319 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 2.401 2.463 -- 463 8637 0.245 0.301 -- 97.04
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 62.797
Anisotropic B[1][1] 5.58
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.04
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.54
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_other 2.563
r_scangle_other 2.592
r_mcbond_other 1.615
r_long_range_B_refined 4.13
r_mcbond_it 1.615
r_scbond_it 1.676
r_gen_planes_other 0.001
r_long_range_B_other 4.127
r_bond_other_d 0.001
r_dihedral_angle_2_deg 34.222
r_chiral_restr 0.074
r_angle_refined_deg 1.385
r_dihedral_angle_4_deg 18.638
r_gen_planes_refined 0.006
r_scbond_other 1.676
r_dihedral_angle_1_deg 5.802
r_dihedral_angle_3_deg 14.923
r_mcangle_it 2.563
r_bond_refined_d 0.011
r_angle_other_deg 0.801
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 17838
Nucleic Acid Atoms 0
Heterogen Atoms 206
Solvent Atoms 361

Software

Software
Software Name Purpose
MD2 data collection version: diffractometer software from EMBL
PHASER phasing
REFMAC refinement version: 5.7.0032
DENZO data reduction
SCALEPACK data scaling