X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 298.0
Details Ammonium Sulfate, Tris, EDTA, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 124.61 α = 90
b = 124.61 β = 90
c = 46.97 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 94.2
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2003-06-22
Diffraction Radiation
Monochromator Protocol
single crystal Si(220); cylindrically bent SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.1 1. ALS 5.0.1

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
2.17 20 96.2 -- 0.0874 -- 3.417 22440 21597 0.0 -3.0 36.4
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)
2.17 2.31 91.2 -- 0.347 2.14 2.77 3380

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 2.17 8.0 -- 2.0 22377 21580 915 96.4 0.232 0.219 0.212 0.269 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 2.17 2.27 2094 85 -- 0.309 0.373 -- 90.0
X Ray Diffraction 2.27 2.38 2380 110 -- 0.29 0.33 -- 95.9
X Ray Diffraction 2.38 2.53 2529 103 -- 0.268 0.318 -- 98.2
X Ray Diffraction 2.53 2.72 2610 124 -- 0.251 0.34 -- 98.6
X Ray Diffraction 2.72 2.98 2628 120 -- 0.222 0.255 -- 97.9
X Ray Diffraction 2.98 3.38 2636 107 -- 0.201 0.265 -- 97.6
X Ray Diffraction 3.38 4.15 2677 118 -- 0.163 0.22 -- 97.6
X Ray Diffraction 4.15 8.0 2675 90 -- 0.179 0.235 -- 95.7
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Overall
Mean Isotropic B 25.7
Anisotropic B[1][1] 1.18
Anisotropic B[1][2] 1.61
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.18
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.35
RMS Deviations
Key Refinement Restraint Deviation
x_improper_angle_d 1.46
x_angle_deg 1.77
x_bond_d 0.012
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2255
Nucleic Acid Atoms 0
Heterogen Atoms 59
Solvent Atoms 74

Software

Computing
Computing Package Purpose
BLU-ICE Data Reduction (intensity integration)
XENGEN Data Reduction (data scaling)
MOLREP Structure Solution
X-PLOR 3.1 Structure Refinement
Software
Software Name Purpose
X-PLOR version: 3.1 refinement
MolRep model building
XENGEN data reduction
BluIce data collection