X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.3
Temperature 298.0
Details 32% PEG 4000, 50mM TRIS, 50 mM MgCl2, pH 8.3, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 86.2 α = 90
b = 30.96 β = 114.54
c = 63.94 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2005-03-10
Diffraction Radiation
Monochromator Protocol
Si MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CAMD BEAMLINE GCPCC 0.95144, 1.24242, 0.95056, 0.91838 CAMD GCPCC

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
1.42 50 96.0 0.042 -- -- 2.4 29439 28262 0.0 0.0 --
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)
1.42 1.47 64.1 0.233 -- -- 1.8 1848

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 1.45 24.37 -- 0.0 27644 26483 2635 95.8 0.189 0.189 0.189 0.219 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 1.45 1.54 4037 413 3624 0.222 0.229 0.011 88.5
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 17.8
Anisotropic B[1][1] -0.56
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -1.29
Anisotropic B[2][2] 2.81
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.25
RMS Deviations
Key Refinement Restraint Deviation
c_mcbond_it 2.25
c_bond_d 0.004
c_improper_angle_d 0.72
c_scbond_it 2.07
c_angle_deg 1.0
c_dihedral_angle_d 18.8
c_mcangle_it 2.49
c_scangle_it 3.08
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.15
Luzzati Sigma A (Observed) 0.08
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.18
Luzzati Sigma A (R-Free Set) 0.05
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1325
Nucleic Acid Atoms 0
Heterogen Atoms 6
Solvent Atoms 331

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
CNS phasing
CNS refinement
PDB_EXTRACT data extraction version: 1.701
MAR345 data collection