X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 295.0
Details 50 mM Sodium Cacodylate, 50-125 mM Sodium Citrate, 10-20 % isopropanol, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 70.89 α = 90
b = 70.89 β = 90
c = 120.84 γ = 120
Symmetry
Space Group H 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 crystal monochrometer 2007-08-06
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-C 0.97949 APS 24-ID-C

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
2.5 50 85.9 0.058 -- -- 7.1 -- 6682 -- -- --
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)
2.5 2.59 54.0 0.163 -- -- 5.5 419

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 2.507 27.367 -- 1.97 -- 6637 643 85.44 -- 0.225 0.222 0.258 --
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 2.507 2.7 -- 87 818 0.295 0.36 -- 59.0
X Ray Diffraction 2.7 2.971 -- 125 1066 0.255 0.305 -- 76.0
X Ray Diffraction 2.971 3.401 -- 133 1353 0.234 0.276 -- 95.0
X Ray Diffraction 3.401 4.282 -- 148 1350 0.213 0.279 -- 97.0
X Ray Diffraction 4.282 27.369 -- 150 1407 0.203 0.207 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 88.968
Anisotropic B[1][1] -32.242
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -32.242
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 64.484
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.041
f_angle_d 0.825
f_dihedral_angle_d 13.931
f_bond_d 0.005
f_plane_restr 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1431
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 10

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
PHASER phasing
PHENIX refinement version: 1.5_2
PDB_EXTRACT data extraction version: 3.005
ADSC data collection version: Quantum