X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 293.0
Details 20% PEG3350 and 0.15 M ammonium phosphate dibasic, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 104.39 α = 90
b = 133.55 β = 90
c = 175.84 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2010-06-04
Diffraction Radiation
Monochromator Protocol
Si111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CHESS BEAMLINE A1 0.987 CHESS A1

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
3 50 99.7 -- -- -- -- 49019 48872 1.0 1.0 --
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)
3.0 3.11 99.0 -- -- -- -- --

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 3.013 42.544 -- 0.0 48786 46452 1890 94.24 0.2003 0.2003 0.1971 0.2731 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 3.0131 3.0946 -- 111 2659 0.2894 0.3987 -- 74.0
X Ray Diffraction 3.0946 3.1856 -- 131 3085 0.2433 0.3679 -- 87.0
X Ray Diffraction 3.1856 3.2884 -- 140 3342 0.2421 0.321 -- 93.0
X Ray Diffraction 3.2884 3.4059 -- 147 3459 0.2307 0.3141 -- 96.0
X Ray Diffraction 3.4059 3.5422 -- 147 3493 0.2199 0.2941 -- 97.0
X Ray Diffraction 3.5422 3.7033 -- 148 3497 0.2064 0.2756 -- 97.0
X Ray Diffraction 3.7033 3.8984 -- 143 3425 0.1986 0.3011 -- 95.0
X Ray Diffraction 3.8984 4.1425 -- 152 3462 0.1824 0.2411 -- 96.0
X Ray Diffraction 4.1425 4.462 -- 150 3496 0.1576 0.2482 -- 97.0
X Ray Diffraction 4.462 4.9104 -- 153 3545 0.161 0.2293 -- 97.0
X Ray Diffraction 4.9104 5.6196 -- 153 3608 0.1758 0.262 -- 98.0
X Ray Diffraction 5.6196 7.0748 -- 151 3677 0.2093 0.2761 -- 99.0
X Ray Diffraction 7.0748 42.5486 -- 164 3814 0.1956 0.2491 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -6.9973
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -18.7807
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 25.778
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.086
f_dihedral_angle_d 19.699
f_angle_d 1.248
f_bond_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 12820
Nucleic Acid Atoms 0
Heterogen Atoms 116
Solvent Atoms 0

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
Phenix/Phaser Structure Solution
PHENIX (phenix.refine: 1.6.4_486) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.6.4_486) refinement
Phenix/Phaser model building
ADSC version: Quantum data collection