X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 298.0
Details 2 MICROLITERS OF PROTEIN SOLUTION CONSISTING OF: 8 MG/ML WILD TYPE DIPHTHERIA TOXIN MONOMER + APUP, 0.5 MILLIMOLAR EDTA, 50 MILLIMOLAR TRIS-HCL, PH 7.5 PLUS 2 MICROLITERS OF RESERVIOR SOLUTION CONSISTING OF: 17% PEG 8000, 1 MOLAR SODIUM CHLORIDE, 50 MILLIMOLAR TRIS-HCL, PH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 167.77 α = 90
b = 134.88 β = 90
c = 46.87 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 1997-11-09
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X12B -- NSLS X12B

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
1.55 40 97.0 0.057 -- -- 3.9 583084 149412 -- 0.0 20.1
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)
1.55 1.62 81.5 0.285 -- 2.5 2.8 18092

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 1.55 40.0 0.0 -- 149412 149412 7212 97.0 0.188 0.188 0.188 0.238 NCS-RELATED (G.PFLUEGL)
RMS Deviations
Key Refinement Restraint Deviation
s_rigid_bond_adp_cmpnt 0.0
s_angle_d 0.023
s_zero_chiral_vol 0.044
s_approx_iso_adps 0.0
s_bond_d 0.008
s_similar_adp_cmpnt 0.031
s_from_restr_planes 0.0256
s_anti_bump_dis_restr 0.039
s_similar_dist 0.0
s_non_zero_chiral_vol 0.045
Coordinate Error
Parameter Value
Number Disordered Residues 78.0
Occupancy Sum Hydrogen 7782.0
Occupancy Sum Non Hydrogen 9442.0
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8300
Nucleic Acid Atoms 0
Heterogen Atoms 95
Solvent Atoms 1809

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling
SHELXL refinement
SHELXL-97 refinement
CCP4 data scaling version: (SCALA)