X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.7
Details THE ENZYME WAS DIALYSED IN 30 MM NAK-PHOSPHATE BUFFER, PH=8.0. SINGLE CRYSTALS WERE GROWN AT 15C WITHIN A FEW WEEKS IN HANGING DROPS (10-15 ML EACH) INITIALLY CONTAINING 1.25 M NAK-PHOSPHATE (PH=8.0), 100 MM 3-PG, 25 MM MGCL2, 20 MM ADP, 10 MM DITHIOTHREITOL, 0.02% NAN3 AND 15 MG/ML PGK. RESERVOIR SOLUTIONS CONTAINED 2.4-2.75 M NAK-PHOSPHATE(PH=8.0)., pH 7.70

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 50.5 α = 90
b = 105.2 β = 98.4
c = 35.9 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 MARRESEARCH -- 1997-06-15
Diffraction Radiation
Monochromator Protocol
GE111 BENT AASYMMETRIC SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SRS BEAMLINE PX7.2 -- SRS PX7.2

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 95.6 0.081 0.081 -- 2.4 -- 34292 -- -- 21.8
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)
1.8 1.88 98.1 0.244 0.244 3.0 2.3 --

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 1.8 20.0 -- 0.0 -- 32755 1662 95.5 -- 0.207 0.207 0.262 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 1.8 1.86 -- -- 3086 0.237 0.299 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 16.5
RMS Deviations
Key Refinement Restraint Deviation
x_improper_angle_d 2.4
x_bond_d 0.011
x_angle_deg 1.62
x_dihedral_angle_d 24.7
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3037
Nucleic Acid Atoms 0
Heterogen Atoms 35
Solvent Atoms 208

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
X-PLOR Structure Solution
X-PLOR 3.8 Structure Refinement
Software
Software Name Purpose
X-PLOR version: 3.8 refinement
X-PLOR model building