X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5
Temperature 294.0
Details sodium acetate, potassium chloride, hexanediol, PEG MME 2000, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 294K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 155.75 α = 90
b = 155.75 β = 90
c = 155.75 γ = 90
Symmetry
Space Group I 2 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2001-12-21
Diffraction Radiation
Monochromator Protocol
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 0.9797,1.1272 ALS 8.3.1

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
2.7 30 99.6 -- 0.058 -- 5.0 17436 17366 0.0 0.0 69.3
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)
2.7 2.8 100.0 -- 0.33 5.1 5.0 1720

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
MAD 2.7 19.78 -- 0.0 15895 15831 1458 99.6 0.23083 0.23083 0.22863 0.25484 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 2.7 2.769 1134 105 1134 0.304 0.332 -- 98.9
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 41.996
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.278
r_gen_planes_refined 0.004
r_chiral_restr 0.094
r_dihedral_angle_3_deg 20.039
r_dihedral_angle_1_deg 3.467
r_angle_refined_deg 1.165
r_bond_refined_d 0.011
r_xyhbond_nbd_refined 0.164
r_symmetry_vdw_refined 0.259
r_symmetry_hbond_refined 0.403
r_mcbond_it 0.583
r_mcangle_it 1.173
r_scbond_it 1.847
r_scangle_it 3.188
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2638
Nucleic Acid Atoms 0
Heterogen Atoms 28
Solvent Atoms 47

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SHARP Structure Solution
REFMAC 5 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0 refinement
SHARP model building
SCALEPACK data reduction
DENZO data collection