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_angle_deg 1.6
c_bond_d 0.01
c_mcangle_it 3.01
c_improper_angle_d 1.05
c_scbond_it 2.41
c_scangle_it 3.78
c_dihedral_angle_d 22.5
c_mcbond_it 1.7
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
DENZO data collection
AMoRE model building
SCALEPACK data reduction
CNS version: 1.1 refinement