X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 273.0
Details 1.0 M ammonium formate, 18 mM dithiothreitol, 10 % (w/v) xylitol, 0.1 M Hepes pH 7.5, VAPOR DIFFUSION, HANGING DROP at 273K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 90.31 α = 90
b = 126.37 β = 90
c = 180.2 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2002-02-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X25 1.050 NSLS X25

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
2.75 25 91.2 0.062 -- -- -- 54236 49463 -- -3.0 37.7
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)
2.75 2.92 -- -- -- -- -- --

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 2.75 19.96 -- 0.0 54236 49495 2388 91.2 -- 0.21 0.21 0.257 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 2.75 2.92 -- 326 5694 0.332 0.397 0.022 67.5
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 52.2
Anisotropic B[1][1] 5.87
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 7.31
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -13.19
RMS Deviations
Key Refinement Restraint Deviation
c_mcbond_it 1.4
c_mcangle_it 2.47
c_scbond_it 1.89
c_bond_d 0.007
c_scangle_it 3.03
c_improper_angle_d 0.95
c_angle_deg 1.4
c_dihedral_angle_d 23.7
Coordinate Error
Parameter Value
Luzzati ESD (R-Free Set) 0.41
Luzzati Sigma A (R-Free Set) 0.62
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11506
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 69

Software

Software
Software Name Purpose
AMoRE phasing
CNS refinement version: 1.0
DENZO data reduction
CCP4 data scaling version: (TRUNCATE)