X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.2
Temperature 298.0
Details PEG 200, sodium citrate, N,N-dimethylglycine, samarium (III) acetate, pH 5.2, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 109.99 α = 90
b = 90.08 β = 122.1
c = 89.08 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2002-08-12
Diffraction Radiation
Monochromator Protocol
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 5ID-B 1.845, 1.746 APS 5ID-B

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
2.15 100 99.9 0.046 0.046 -- 1.88 78638 78638 0.0 0.0 40.2
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)
2.15 2.23 99.9 0.213 0.213 3.41 1.82 7838

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
MAD 2.15 9.99 0.0 0.0 77987 75110 7403 96.3 0.218 0.218 0.203 0.249 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 2.15 2.25 8756 869 7887 0.243 0.295 0.01 90.2
X Ray Diffraction 2.25 2.36 9078 844 8234 0.221 0.28 0.01 92.9
X Ray Diffraction 2.36 2.51 9281 936 8345 0.202 0.266 0.009 94.9
X Ray Diffraction 2.51 2.7 9406 928 8478 0.191 0.245 0.008 96.4
X Ray Diffraction 2.7 2.97 9537 949 8588 0.194 0.256 0.008 97.6
X Ray Diffraction 2.97 3.38 9608 928 8680 0.191 0.235 0.008 98.5
X Ray Diffraction 3.38 4.2 9723 989 8734 0.187 0.228 0.007 99.5
X Ray Diffraction 4.2 9.99 9721 960 8761 0.22 0.253 0.008 99.8
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 36.79
Anisotropic B[1][1] -2.19
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 2.07
Anisotropic B[2][2] -2.63
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 4.82
RMS Deviations
Key Refinement Restraint Deviation
x_mcbond_it 1.46
x_mcangle_it 2.29
x_scangle_it 3.17
x_torsion_impr_deg 1.17
x_angle_deg 1.7
x_scbond_it 2.25
x_bond_d 0.015
x_torsion_deg 23.1
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.22
Luzzati Sigma A (Observed) 0.17
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.28
Luzzati Sigma A (R-Free Set) 0.22
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4818
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 298

Software

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