X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 298.0
Details 13% (w/v) PEG 8000, 0.2M imidazole, pH 7.0 and 5mM DTT, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 54.41 α = 90
b = 108.1 β = 91.92
c = 102.36 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 95
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 Flat mirror (vertical focusing); single crystal Si(311) bent monochromator (horizontal focusing) 1998-03-29
Diffraction Radiation
Monochromator Protocol
NULL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-1 0.98 SSRL BL9-1

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
2.5 50 92.5 -- 0.055 -- 2.1 39623 39623 -- 0.0 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)
2.5 2.54 85.8 -- 0.424 1.8 1.9 1825

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 2.5 50.0 -- 0.0 38094 38094 3554 92.1 -- -- 0.217 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 2.5 2.52 695 60 -- 0.444 0.465 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 46.89
Anisotropic B[1][1] -1.35
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.55
Anisotropic B[2][2] 12.99
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -11.64
RMS Deviations
Key Refinement Restraint Deviation
x_angle_deg 1.4
x_scbond_it 1.324
x_torsion_deg 22.0
x_mcangle_it 1.734
x_scangle_it 2.033
x_mcbond_it 1.024
x_bond_d 0.008
x_torsion_impr_deg 1.03
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.38
Luzzati Sigma A (Observed) 0.51
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.46
Luzzati Sigma A (R-Free Set) 0.56
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9022
Nucleic Acid Atoms 0
Heterogen Atoms 126
Solvent Atoms 378

Software

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