X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.1
Temperature 291.0
Details pH 8.1, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 74.11 α = 71.2
b = 80.32 β = 78.97
c = 80.31 γ = 78.94
Symmetry
Space Group P 1

Diffraction

Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 14-BM-C 0.900 APS 14-BM-C

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
2.5 29.68 89.9 -- -- -- -- 51229 51229 0.0 -- 45.4

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 2.6 29.68 -- 0.0 51229 47083 4740 89.8 0.265 0.231 0.231 0.265 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 2.6 2.76 -- 531 4530 0.394 0.415 0.018 57.8
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 56.1
Anisotropic B[1][1] 2.52
Anisotropic B[1][2] -4.72
Anisotropic B[1][3] -4.63
Anisotropic B[2][2] -1.63
Anisotropic B[2][3] 3.39
Anisotropic B[3][3] -0.89
RMS Deviations
Key Refinement Restraint Deviation
c_dihedral_angle_d 25.2
c_improper_angle_d 1.1
c_scbond_it 3.97
c_angle_deg 1.6
c_scangle_it 6.31
c_mcangle_it 5.12
c_bond_d 0.011
c_mcbond_it 3.11
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.4
Luzzati Sigma A (Observed) 0.52
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.46
Luzzati Sigma A (R-Free Set) 0.54
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8988
Nucleic Acid Atoms 1218
Heterogen Atoms 0
Solvent Atoms 189

Software

Software
Software Name Purpose
CNS refinement version: 1.1
Adxv data processing
SCALEPACK data scaling
CNS phasing