X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 8
Temperature 293.0
Details PEG 4000, LiSO4, Tris-HCl, DTT, glycerol, pH 8.0, VAPOR DIFFUSION, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 164.38 α = 90
b = 164.38 β = 90
c = 111.59 γ = 120
Symmetry
Space Group P 3 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2009-05-18
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 1.0723 ESRF ID23-1

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
2.45 48.47 99.8 0.067 -- -- 4.0 -- 63852 -- -- 57.41
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)
2.45 2.51 99.7 0.526 -- 2.9 4.0 4690

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 2.45 48.467 -- 0.0 -- 63852 3238 99.62 -- 0.2176 0.2167 0.2348 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 2.45 2.51 4688 242 4446 0.3241 0.3477 -- 99.62
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 54.4935
Anisotropic B[1][1] -3.795
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -3.795
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 7.5901
RMS Deviations
Key Refinement Restraint Deviation
t_bond_d 0.008
t_other_torsion 18.54
t_angle_deg 1.01
t_omega_torsion 2.06
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.389
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7432
Nucleic Acid Atoms 0
Heterogen Atoms 162
Solvent Atoms 328

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling version: 3.2.21
PHASER phasing
BUSTER-TNT refinement
PDB_EXTRACT data extraction version: 3.11
BUSTER refinement version: 2.10.0