X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 6
Temperature 293.0
Details 15% PEG4000, 0.15 M (NH4)2SO4, 0.1 M MES buffer pH 6, Vapor diffusion, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 45.2 α = 90
b = 84.1 β = 96.1
c = 179.2 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 210 -- 2008-06-27
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-1 0.933 ESRF ID14-1

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
2.35 42 97.0 -- 0.09 -- 3.8 31756 30497 1.0 -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)
2.35 2.45 91.3 -- 0.43 2.95 3.1 --

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 2.35 20.0 -- -- 31756 25681 1358 97.05 -- 0.22834 0.22554 0.28021 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 2.35 2.41 -- 82 1773 0.256 0.339 -- 90.89
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 24.308
Anisotropic B[1][1] -0.04
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.19
Anisotropic B[2][2] -1.31
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.4
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.655
r_dihedral_angle_2_deg 34.869
r_dihedral_angle_1_deg 5.493
r_mcbond_it 0.839
r_dihedral_angle_4_deg 14.737
r_chiral_restr 0.077
r_dihedral_angle_3_deg 16.918
r_angle_refined_deg 1.091
r_mcangle_it 1.561
r_gen_planes_refined 0.004
r_bond_refined_d 0.007
r_scbond_it 2.301
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4561
Nucleic Acid Atoms 0
Heterogen Atoms 59
Solvent Atoms 167

Software

Software
Software Name Purpose
XSCALE data scaling
PHASER phasing
REFMAC refinement
PDB_EXTRACT data extraction version: 3.006
MxCuBE data collection
XDS data reduction