X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 293.0
Details 30% PEG 4000, 0.1M Tris-HCl, 0.2M Magnesium Chloride, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 30.58 α = 90
b = 69.1 β = 90
c = 84.44 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 315 -- 2012-06-20
Diffraction Radiation
Monochromator Protocol
Si(220) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-E 0.979180 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
2.31 34.55 99.6 0.075 -- -- 3.8 8458 8427 0.0 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)
2.31 2.42 98.7 0.277 -- 5.0 3.6 1181

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 2.31 34.55 -- 1.38 8427 6926 314 82.81 -- 0.2063 0.204 0.2545 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 2.31 2.9054 -- 116 2785 0.2178 0.2815 -- 71.0
X Ray Diffraction 2.9054 34.5529 -- 198 3827 0.1986 0.2459 -- 94.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.2185
Anisotropic B[1][1] -0.0058
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.9718
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.9776
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.003
f_angle_d 0.768
f_plane_restr 0.004
f_dihedral_angle_d 12.294
f_chiral_restr 0.051
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1531
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 85

Software

Software
Software Name Purpose
XSCALE data scaling
PHENIX refinement version: 1.7.3_928
PDB_EXTRACT data extraction version: 3.11
ADSC data collection version: Quantum
PHASER phasing