X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop Macroseeding
pH 5
Temperature 277.0
Details 50% MPD, 0.1 M sodium acetate at pH 5.0, 10 mM CaCl2, VAPOR DIFFUSION, HANGING DROP, MACROSEEDING, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 46.5 α = 90
b = 270.2 β = 90
c = 137.2 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD BRANDEIS Mirrors 2000-01-01
Diffraction Radiation
Monochromator Protocol
double-crystal monochromator si(111), beam focused by a toroidal mirror SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X12C 0.95 NSLS X12C

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 38 87.4 -- 0.064 -- 9.6 44325 38750 1.0 1.0 17.2
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 45.1 -- 0.771 -- -- 3312

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 2.2 38.11 -- 0.0 44653 34808 1732 78.4 0.243 0.229 0.229 0.262 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 -- 157 3155 0.375 0.412 0.033 45.1
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 40.5
Anisotropic B[1][1] 30.77
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -17.45
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -13.32
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 2.83
c_scbond_it 2.1
c_mcangle_it 2.05
c_mcbond_it 1.22
c_improper_angle_d 0.94
c_bond_d 0.006
c_angle_deg 1.4
c_dihedral_angle_d 26.5
Coordinate Error
Parameter Value
Luzzati ESD (R-Free Set) 0.38
Luzzati Sigma A (R-Free Set) 0.51
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3990
Nucleic Acid Atoms 0
Heterogen Atoms 9
Solvent Atoms 234

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS Structure Solution
CNS 1.1 Structure Refinement
Software
Software Name Purpose
CNS version: 1.1 refinement
CNS model building
SCALEPACK data reduction
DENZO data collection