X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Microbatch
pH 4.6
Temperature 287.0
Details Ammonium Sulphate, Sodium acetate, pH 4.6, microbatch, temperature 287K
Method Microbatch
pH 8.5
Temperature 287.0
Details Dihydrogen Phosphate, Tris-Hcl, pH 8.5, microbatch, temperature 287K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 72 α = 90
b = 133.94 β = 90
c = 73.25 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH Mirrors 2001-03-31
Diffraction Radiation
Monochromator Protocol
Sagitally focused Ge(220) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-1 0.93400 ESRF ID14-1

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
2.3 29.34 91.9 0.04 0.034 -- 3.6 35212 31239 2.0 2.0 43.4
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)
2.3 2.42 90.5 0.2 0.17 3.6 3.2 4787

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
Single Wavelength Anomalous Dispersion 2.3 29.34 -- 0.0 31239 31239 1518 95.0 0.242 0.242 0.238 0.27 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 2.3 2.44 4787 236 4551 0.268 0.302 0.02 90.5
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 55.7
Anisotropic B[1][1] 13.7
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -7.53
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -6.17
RMS Deviations
Key Refinement Restraint Deviation
c_mcangle_it 2.79
c_angle_deg 1.0
c_bond_d 0.005
c_mcbond_it 1.65
c_scbond_it 2.68
c_scangle_it 3.63
c_dihedral_angle_d 21.1
c_improper_angle_d 0.65
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.31
Luzzati Sigma A (Observed) 0.25
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.38
Luzzati Sigma A (R-Free Set) 0.29
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3738
Nucleic Acid Atoms 0
Heterogen Atoms 10
Solvent Atoms 220

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
SOLVE/RESOLVE Structure Solution
CNS 1.0 Structure Refinement
Software
Software Name Purpose
Solve/Resolve model building
CNS version: 1.0 refinement