X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 293.0
Details 3M sodium formate, 8% v/v ethylene glycol,20 mM TRIS.HCl, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 210.72 α = 90
b = 210.72 β = 90
c = 324.41 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2010-05-08
Diffraction Radiation
Monochromator Protocol
Si 111 channel SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 1.2915 ESRF ID14-4

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
2.7 64.88 92.4 -- 0.131 -- 4.6 -- 210135 1.0 2.0 46.042
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)
2.7 2.85 89.1 0.393 -- 3.3 4.6 29358

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 2.7 61.13 -- -- 199524 199524 10510 92.32 0.176 0.176 0.17292 0.23465 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 2.7 2.77 -- 754 14026 0.258 0.349 -- 88.83
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 29.646
Anisotropic B[1][1] -0.01
Anisotropic B[1][2] -0.01
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.01
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.02
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 5.098
r_scbond_it 2.952
r_mcangle_it 1.629
r_mcbond_it 0.761
r_gen_planes_refined 0.007
r_chiral_restr 0.13
r_dihedral_angle_4_deg 20.204
r_dihedral_angle_3_deg 21.8
r_dihedral_angle_2_deg 40.018
r_dihedral_angle_1_deg 6.085
r_angle_refined_deg 1.856
r_bond_refined_d 0.02
Coordinate Error
Parameter Value
Luzzati Sigma A (Observed) 0.182
Luzzati ESD (R-Free Set) 0.279
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 33945
Nucleic Acid Atoms 0
Heterogen Atoms 50
Solvent Atoms 1545

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.5.0110 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0110 refinement
MOLREP model building
ADSC version: Quantum data collection