X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Microdialysis
pH 6.6
Temperature 310.0
Details potassium phosphate, mg-atp, pH 6.6, MICRODIALYSIS, temperature 310K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 228.55 α = 90
b = 91.98 β = 132.34
c = 156.89 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 298
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS II -- --
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200H 1.5418 -- --

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
2.99 15.05 87.1 -- 0.079 -- -- -- 42607 -- -- 48.3

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 3.0 15.0 -- 0.0 42607 42471 4285 88.4 -- -- 0.218 0.253 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 3.0 3.19 5435 591 5435 0.324 0.328 0.014 75.6
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 41.1
Anisotropic B[1][1] 5.85
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 11.88
Anisotropic B[2][2] -4.63
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.23
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 3.78
c_scbond_it 2.41
c_mcangle_it 3.01
c_mcbond_it 1.7
c_improper_angle_d 1.05
c_dihedral_angle_d 22.5
c_angle_deg 1.6
c_bond_d 0.01
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.36
Luzzati Sigma A (Observed) 0.58
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.43
Luzzati Sigma A (R-Free Set) 0.59
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 15378
Nucleic Acid Atoms 0
Heterogen Atoms 186
Solvent Atoms 0

Software

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