X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details GROWN FROM PEG8K PH6.5 THE PENTACOVALENT TRANSITION STATE ANALOG WAS PREPARED BY SOAKING SODIUM TUNGSTATE AND ADENOSINE INTO THE CRYSTAL. THE COMPOUNDS WERE FOUND TO BIND IN THE ACTIVE SITE OF CHAIN B. THE ACTIVE SITE OF CHAIN A IS BLOCKED BY A LATTICE CONTACT AND IS NOT AVAILABLE TO THE SUBSTRATE. THREE NEW BONDS ARE FORMED UPON SOAKING THIS MIXTURE INTO THE PKCI CRYSTALS: ONE BETWEEN THE NE OF HIS B 112 AND THE ALPHA TUNGSTATE, ONE BETWEEN THE ALPHA AND BETA TUNGSTATE IONS, AND ONE BETWEEN THE NUCLEOSIDE RIBOSE AND THE ALPHA TUNGSTATE ION.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 46.2 α = 90
b = 77.8 β = 90
c = 80.8 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS II -- 1996-10-10
Diffraction Radiation
Monochromator Protocol
-- --
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
-- -- -- -- --

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
1.8 20 84.3 0.085 -- -- 8.0 -- 23339 -- 2.0 --

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
-- 1.8 10.0 -- 2.0 -- 40772 -- 78.9 -- 0.195 0.195 0.223 --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.5
RMS Deviations
Key Refinement Restraint Deviation
x_improper_angle_d 1.76
x_bond_d 0.015
x_angle_deg 1.969
x_dihedral_angle_d 26.98
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1748
Nucleic Acid Atoms 0
Heterogen Atoms 27
Solvent Atoms 256

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
X-PLOR 3.1 Structure Solution
X-PLOR 3.1 Structure Refinement
Software
Software Name Purpose
X-PLOR version: 3.1 refinement
X-PLOR version: 3.1 model building