X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.6
Temperature 277.0
Details 15% PEG4000, 10% isopropanol, 0.1M sodium citrate pH 5.6, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 53.91 α = 90
b = 53.91 β = 90
c = 150.59 γ = 90
Symmetry
Space Group P 41 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 150
2 150
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH Primary Aperture - 7.4 m from source. Be Windows front end - 0.020" thick, 7.1 m from source exit window: 0.010" thick. White X-Ray Beam. 2001-03-28
CCD MARRESEARCH Primary Aperture - 7.4 m from source. Be Windows front end - 0.020" thick, 7.1 m from source exit window - 0.010" thick. White X-Ray Beam. 2000-10-20
Diffraction Radiation
Monochromator Protocol
Si 111 MAD
Si 111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X9A 0.98399 NSLS X9A
SYNCHROTRON NSLS BEAMLINE X9A 0.97903, 0.97927 NSLS X9A

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
2.4 30 91.8 -- 0.078 -- -- 9170 9170 0.0 0.0 27.6
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)
2.4 2.55 98.1 -- -- -- -- --

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 2.4 17.97 0.0 0.0 9170 9170 936 98.7 0.2345 0.24 0.24 0.275 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 2.4 2.55 -- 144 1338 0.231 0.329 0.027 98.1
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 36.1
Anisotropic B[1][1] 1.38
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.38
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.77
RMS Deviations
Key Refinement Restraint Deviation
c_bond_d 0.006
c_scbond_it 2.71
c_dihedral_angle_d 22.4
c_angle_deg 1.3
c_scangle_it 3.49
c_mcbond_it 1.44
c_mcangle_it 2.38
c_improper_angle_d 0.81
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.3
Luzzati Sigma A (Observed) 0.12
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.38
Luzzati Sigma A (R-Free Set) 0.27
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1542
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 127

Software

Software
Software Name Purpose
MLPHARE phasing
CNS refinement version: 1.0
DENZO data reduction
SCALEPACK data scaling