X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.4
Temperature 292.0
Details PEG 3350, lithium citrate, Inositol 1,4,5-trisphosphate, pH 8.4, VAPOR DIFFUSION, SITTING DROP, temperature 292K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 158.9 α = 90
b = 158.9 β = 90
c = 151.79 γ = 90
Symmetry
Space Group P 43

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 80
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2002-02-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-BM 0.9765 APS 19-BM

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
2.81 47.7 -- -- -- -- -- 85993 85993 0.0 -3.0 87.9

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 2.81 47.7 -- 0.0 91758 85993 4358 93.7 -- -- 0.236 0.266 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 2.81 2.94 10407 527 9880 0.403 0.437 0.019 91.0
X Ray Diffraction 2.94 3.09 10799 519 10280 0.337 0.349 0.015 94.2
X Ray Diffraction 3.09 3.29 10802 517 10285 0.297 0.346 0.015 94.6
X Ray Diffraction 3.29 3.54 10911 536 10375 0.266 0.295 0.013 95.3
X Ray Diffraction 3.54 3.89 10964 559 10405 0.238 0.268 0.011 95.5
X Ray Diffraction 3.89 4.46 10857 581 10276 0.214 0.248 0.01 94.8
X Ray Diffraction 4.46 5.62 10738 588 10150 0.201 0.228 0.009 93.4
X Ray Diffraction 5.62 47.7 10515 531 9984 0.2 0.235 0.01 90.4
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 80.6
Anisotropic B[1][1] -7.23
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -7.23
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 14.46
RMS Deviations
Key Refinement Restraint Deviation
x_bond_d 0.007
x_torsion_impr_deg 0.79
x_angle_deg 1.2
x_torsion_deg 21.9
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.39
Luzzati Sigma A (Observed) 0.53
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.44
Luzzati Sigma A (R-Free Set) 0.58
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 16236
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 0

Software

Software
Software Name Purpose
CNS refinement version: 1.1
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing