X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.3
Temperature 277.0
Details PEG mme5000, sodium acetate, 1,6-hexanediol, MES, pH 5.3, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 41.52 α = 90
b = 49.74 β = 90
c = 92.16 γ = 90
Symmetry
Space Group P 2 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2000-11-14
CCD BRANDEIS - B4 -- 2000-12-14
Diffraction Radiation
Monochromator Protocol
Si(111) crystals MAD
Si(111) crystals SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X25 0.9790 NSLS X25
SYNCHROTRON CHESS BEAMLINE F2 0.9793,0.9791,0.9649 CHESS F2

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
2.2 19.34 97.4 0.042 -- -- 4.0 9935 9935 0.0 -- 29.4
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)
2.2 2.34 97.8 -- -- -- -- --

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 2.2 19.36 -- 0.0 9935 9935 693 97.4 -- 0.226 0.226 0.238 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 2.2 2.34 -- 113 1506 0.257 0.273 0.026 97.8
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 47.0
Anisotropic B[1][1] -0.12
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 7.46
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -7.34
RMS Deviations
Key Refinement Restraint Deviation
c_bond_d 0.008
c_mcangle_it 5.1
c_scangle_it 7.35
c_improper_angle_d 0.95
c_mcbond_it 3.49
c_scbond_it 5.2
c_angle_deg 1.4
c_dihedral_angle_d 22.8
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.27
Luzzati Sigma A (Observed) 0.22
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.33
Luzzati Sigma A (R-Free Set) 0.27
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 999
Nucleic Acid Atoms 0
Heterogen Atoms 16
Solvent Atoms 118

Software

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