X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.6
Temperature 277.0
Details 0.1 M Tris-HCl, 18% PEG6000, 0.2 M lithium chloride, pH 7.6, vapor diffusion, sitting drop, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 67.6 α = 90
b = 67.6 β = 90
c = 46.8 γ = 120
Symmetry
Space Group P 61

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 114
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 345 mm plate -- 2011-10-26
Diffraction Radiation
Monochromator Protocol
Graded multilayer (osmic) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RUH3R 1.5418 -- --

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
1.57 19.51 90.2 -- 0.045 -- 8.2 15470 15470 0.0 0.0 --
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)
1.57 1.65 100.0 0.266 0.266 2.9 8.0 2498

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 1.57 19.51 -- 0.0 15437 15437 724 90.15 0.1996 0.1996 0.1981 0.2303 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 1.57 1.611 -- 59 1219 0.298 0.3 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 24.6385
Anisotropic B[1][1] 0.47
Anisotropic B[1][2] 0.23
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.47
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.7
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.012
r_dihedral_angle_1_deg 6.536
r_angle_refined_deg 1.441
r_chiral_restr 0.094
r_dihedral_angle_2_deg 26.289
r_dihedral_angle_4_deg 10.776
r_mcbond_it 0.833
r_scangle_it 3.832
r_gen_planes_refined 0.007
r_dihedral_angle_3_deg 11.898
r_mcangle_it 1.501
r_scbond_it 2.4
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 867
Nucleic Acid Atoms 0
Heterogen Atoms 17
Solvent Atoms 123

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling version: 3.3.16
MOLREP phasing
REFMAC refinement
PDB_EXTRACT data extraction version: 3.11
MAR345dtb data collection