X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5
Temperature 295.0
Details phosphate, pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 79.12 α = 90
b = 188.2 β = 99.24
c = 127.1 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IIC -- 2001-08-06
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 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
2.25 50 87.0 0.074 -- -- 4.5 173239 150718 0.0 0.0 13.4
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)
2.25 2.33 47.4 0.201 -- 4.0 2.1 8212

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 2.25 50.0 0.0 0.0 173306 150643 15071 86.9 -- -- 0.173 0.21 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 2.25 2.39 13423 1509 13523 0.2231 0.2735 0.007 52.1
X Ray Diffraction 2.39 2.57 19873 2208 -- 0.2166 0.2645 -- --
X Ray Diffraction 2.57 2.83 25041 2739 -- 0.1876 0.2367 -- --
X Ray Diffraction 2.83 3.24 25483 2818 -- 0.1781 0.2209 -- --
X Ray Diffraction 3.24 4.09 25859 2915 -- 0.1574 0.1892 -- --
X Ray Diffraction 4.09 50.0 25893 2882 -- 0.1509 0.1769 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 22.8
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 4.02
c_scbond_it 2.99
c_bond_d 0.006
c_improper_angle_d 0.82
c_mcangle_it 2.66
c_angle_deg 1.4
c_dihedral_angle_d 25.2
c_mcbond_it 1.78
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.22
Luzzati Sigma A (Observed) 0.24
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.27
Luzzati Sigma A (R-Free Set) 0.31
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 23472
Nucleic Acid Atoms 0
Heterogen Atoms 220
Solvent Atoms 1685

Software

Software
Software Name Purpose
SCALEPACK data scaling
AMoRE phasing
CNS refinement