X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 9
Temperature 293.0
Details 17% PEG3350, 1.6 M LiCl, 0.1 M Tris, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 93.51 α = 90
b = 133.03 β = 109.39
c = 122.65 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD Marmosaic mirrors 2009-08-27
Diffraction Radiation
Monochromator Protocol
Double crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CLSI BEAMLINE 08ID-1 0.97934 CLSI 08ID-1

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
1.79 35.23 93.1 -- 0.159 -- 3.5 243581 243581 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)
1.8 1.9 89.4 0.419 0.419 1.4 3.2 34062

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 1.79 35.23 -- 0.0 243581 243340 12198 92.31 -- 0.1448 0.1424 0.1892 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 1.794 1.84 14738 770 14738 0.22 0.281 -- 79.86
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 13.9279
Anisotropic B[1][1] -0.21
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.33
Anisotropic B[2][2] -0.33
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.76
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 6.579
r_dihedral_angle_2_deg 36.539
r_scangle_it 3.869
r_dihedral_angle_4_deg 14.654
r_mcangle_it 1.632
r_angle_refined_deg 2.025
r_dihedral_angle_3_deg 14.25
r_bond_refined_d 0.025
r_gen_planes_refined 0.012
r_chiral_restr 0.177
r_mcbond_it 1.066
r_scbond_it 2.661
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.075
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 22936
Nucleic Acid Atoms 0
Heterogen Atoms 356
Solvent Atoms 3442

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling version: 3.3.16
REFMAC refinement
PDB_EXTRACT data extraction version: 3.10
MxDC data collection
REFMAC phasing