X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 293.0
Details 2.1 M ammonium sulphate, 100 mM MES monohydrate pH 6.5 and 2.5% v/v 1,4-dioxane, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 75.21 α = 90
b = 75.21 β = 90
c = 124.71 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2007-11-04
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 1.004 ESRF ID14-4

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 91.0 0.062 -- -- 5.3 30716 30716 -- -- --

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 19.72 -- 0.0 -- 30668 1566 90.43 -- 0.1801 0.1779 0.2214 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 1.847 -- 102 2113 0.246 0.308 -- 90.97
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 34.137
Anisotropic B[1][1] 0.88
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.88
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.76
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.325
r_dihedral_angle_3_deg 14.343
r_gen_planes_refined 0.006
r_scbond_it 2.122
r_bond_refined_d 0.012
r_chiral_restr 0.077
r_scangle_it 3.538
r_dihedral_angle_4_deg 16.259
r_dihedral_angle_2_deg 37.032
r_gen_planes_other 0.001
r_mcbond_other 0.183
r_angle_other_deg 0.886
r_dihedral_angle_1_deg 5.897
r_mcbond_it 0.736
r_mcangle_it 1.35
r_bond_other_d 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2737
Nucleic Acid Atoms 0
Heterogen Atoms 15
Solvent Atoms 225

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0072
PDB_EXTRACT data extraction version: 3.10
MOSFLM data reduction
SCALA data scaling
PHASER phasing