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_scangle_it 3.17
x_scbond_it 2.25
x_mcangle_it 2.29
x_mcbond_it 1.46
x_torsion_impr_deg 1.17
x_torsion_deg 23.1
x_angle_deg 1.7
x_bond_d 0.015
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

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SHARP Structure Solution
CNS 1.1 Structure Refinement
Software
Software Name Purpose
Crystallography & NMR System version: 1.1 refinement