X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 298.0
Details Sodium Formate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 54.44 α = 63.18
b = 54.45 β = 62.27
c = 55.18 γ = 89.81
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD SBC-2 mirror 2002-08-29
Diffraction Radiation
Monochromator Protocol
double crystal monochromator, Si-111 MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97932, 0.97952, 0.946 APS 19-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
1.55 29.4 94.3 0.055 -- -- 1.9 66002 66002 0.0 0.0 10.3
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)
1.55 1.61 74.3 -- -- -- -- --

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 1.55 29.4 -- 0.0 66002 66002 6695 93.9 0.171 0.171 0.1696 0.19 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 1.55 1.65 -- 973 8432 0.19 0.206 0.007 80.2
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 14.4
Anisotropic B[1][1] -1.18
Anisotropic B[1][2] 0.31
Anisotropic B[1][3] -0.88
Anisotropic B[2][2] -1.11
Anisotropic B[2][3] -1.32
Anisotropic B[3][3] 2.29
RMS Deviations
Key Refinement Restraint Deviation
c_mcangle_it 2.7
c_angle_deg 1.3
c_dihedral_angle_d 26.5
c_scbond_it 2.38
c_mcbond_it 1.57
c_scangle_it 3.52
c_bond_d 0.004
c_improper_angle_d 0.77
Coordinate Error
Parameter Value
Luzzati ESD (R-Free Set) 0.16
Luzzati Sigma A (R-Free Set) 0.07
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3746
Nucleic Acid Atoms 0
Heterogen Atoms 18
Solvent Atoms 538

Software

Software
Software Name Purpose
d*TREK data scaling
HKL-2000 data reduction
CNS refinement
d*TREK data reduction
HKL-2000 data scaling
CNS phasing