X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.25
Temperature 298.0
Details PEG 400, magnesium chloride, Tris, Glycine, Ethylene Glycol , pH 7.25, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 111.68 α = 90
b = 111.68 β = 90
c = 177.59 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 200
2 200
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 mirrors 2001-06-22
CCD ADSC QUANTUM 210 mirrors 2002-01-17
Diffraction Radiation
Monochromator Protocol
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CHESS BEAMLINE F2 0.8655 CHESS F2
SYNCHROTRON APS BEAMLINE 17-ID 1.0 APS 17-ID

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
2.12 37.45 98.0 0.33 0.067 -- 6.0 135299 132887 4.0 4.0 14.9
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)
2.11 2.17 -- -- -- 2.4 -- --

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 2.11 24.54 -- 4.0 142520 78216 3949 55.6 -- -- 0.223 0.246 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 2.11 2.21 2431 111 2320 0.296 0.296 0.028 13.6
X Ray Diffraction 2.21 2.32 4208 221 3987 0.327 0.328 0.022 23.6
X Ray Diffraction 2.32 2.47 5914 357 5557 0.279 0.279 0.015 33.2
X Ray Diffraction 2.47 2.66 8512 423 8089 0.263 0.263 0.013 47.6
X Ray Diffraction 2.66 2.92 11257 583 10674 0.269 0.269 0.011 63.2
X Ray Diffraction 2.92 3.35 13836 648 13188 0.257 0.257 0.01 77.7
X Ray Diffraction 3.35 4.21 15634 781 14853 0.21 0.21 0.008 87.8
X Ray Diffraction 4.21 24.54 16586 837 15749 0.199 0.199 0.007 93.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 49.2
Anisotropic B[1][1] 4.94
Anisotropic B[1][2] 5.65
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 4.94
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -9.88
RMS Deviations
Key Refinement Restraint Deviation
x_torsion_impr_deg 1.12
x_torsion_deg 20.3
x_angle_deg 1.6
x_bond_d 0.01
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.3
Luzzati Sigma A (Observed) 0.39
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.31
Luzzati Sigma A (R-Free Set) 0.33
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7199
Nucleic Acid Atoms 0
Heterogen Atoms 162
Solvent Atoms 338

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
MOLREP Structure Solution
CNS 1.0 Structure Refinement
Software
Software Name Purpose
Crystallography & NMR System version: 1.0 refinement