X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 291.0
Details 10 mg/mL AURORA A protein, 1 mM RPM1715, 10 % (v/v) PEG 3350, 25 mM phosphate(Na/K pH 7.4), 5 % Tacismate pH 7.0 VAPOR DIFFUSION, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 85.71 α = 90
b = 85.71 β = 90
c = 77.08 γ = 120
Symmetry
Space Group P 32

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 93
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RIGAKU SATURN 944+ MIRRORS 2011-08-24
Diffraction Radiation
Monochromator Protocol
MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54178 -- --

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
2.9 20 99.1 0.065 0.036 -- 3.7 -- 13920 -- -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)
2.9 3.0 99.0 0.411 0.264 4.5 3.7 --

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 2.9003 18.948 -- 1.99 -- 13913 557 99.36 -- -- 0.2273 0.2743 --
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 2.9003 3.1909 -- 140 3367 0.3245 0.4259 -- 99.0
X Ray Diffraction 3.1909 3.6498 -- 138 3306 0.2252 0.325 -- 99.0
X Ray Diffraction 3.6498 4.5875 -- 139 3349 0.1832 0.2183 -- 99.0
X Ray Diffraction 4.5875 18.9484 -- 140 3334 0.1733 0.2056 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 1.8231
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.8231
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.6462
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.105
f_angle_d 1.902
f_bond_d 0.013
f_dihedral_angle_d 21.665
f_plane_restr 0.008
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.4
Luzzati Sigma A (Observed) 0.54
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.4
Luzzati Sigma A (R-Free Set) 0.44
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4316
Nucleic Acid Atoms 0
Heterogen Atoms 50
Solvent Atoms 28

Software

Software
Software Name Purpose
StructureStudio data collection
PHENIX model building
PHENIX refinement version: (phenix.refine: 1.7_650)
XDS data reduction
XDS data scaling
PHENIX phasing