X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 295.0
Details 15% PEG4000, 0.1 M Tris, pH 8.0, 0.2 M lithium sulfate, 10 mM cadmium chloride, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 124.58 α = 90
b = 124.58 β = 90
c = 117.84 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 315 -- 2011-02-11
Diffraction Radiation
Monochromator Protocol
Si(220) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-E 0.97949 APS 24-ID-E

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
2.62 39.79 100.0 -- 0.096 -- 7.3 -- 32251 -- -- --
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)
2.619 2.67 99.4 -- 0.67 2.0 5.9 --

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 2.619 39.788 -- -- -- 30583 1633 99.96 -- 0.20836 0.20591 0.25552 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 2.619 2.687 -- 139 2199 0.306 0.341 -- 99.74
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 56.557
Anisotropic B[1][1] 2.32
Anisotropic B[1][2] 1.16
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.32
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.48
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.029
r_scbond_it 2.314
r_mcangle_it 1.684
r_mcbond_it 0.89
r_gen_planes_refined 0.007
r_chiral_restr 0.103
r_dihedral_angle_4_deg 20.766
r_dihedral_angle_3_deg 18.569
r_dihedral_angle_2_deg 40.419
r_dihedral_angle_1_deg 6.946
r_angle_refined_deg 1.586
r_bond_refined_d 0.016
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4610
Nucleic Acid Atoms 0
Heterogen Atoms 9
Solvent Atoms 79

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
Phaser Structure Solution
REFMAC 5.5.0109 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0109 refinement
Phaser model building
ADSC version: Quantum data collection