3W9T

pore-forming CEL-III


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 4.2
Temperature 293.0
Details 30% PEG400, 0.1M CdCl2, 0.1M sodium acetate, 10mM CaCl2, 0.1M lactulose, pH 4.2, VAPOR DIFFUSION, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 219.8 α = 90
b = 228.65 β = 127.13
c = 133.02 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 95
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2010-10-12
Diffraction Radiation
Monochromator Protocol
Si (111) double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03

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
2.9 53.5 98.6 0.1 -- -- 3.9 -- 113863 -- -- --
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)
2.9 3.06 99.3 0.411 -- 2.0 3.9 --

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
SIR 2.9 48.2 -- -- -- 107985 5691 98.41 -- 0.24108 0.23942 0.27305 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 2.9 2.975 -- 420 7991 0.339 0.362 -- 99.14
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 80.149
Anisotropic B[1][1] 0.64
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.1
Anisotropic B[2][2] 0.39
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.51
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 17.854
r_dihedral_angle_1_deg 8.651
r_gen_planes_refined 0.004
r_dihedral_angle_3_deg 18.109
r_dihedral_angle_2_deg 40.536
r_bond_refined_d 0.009
r_chiral_restr 0.134
r_angle_refined_deg 1.595
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 23191
Nucleic Acid Atoms 0
Heterogen Atoms 909
Solvent Atoms 75

Software

Software
Software Name Purpose
PHENIX model building
REFMAC refinement version: 5.7.0029
MOSFLM data reduction
SCALA data scaling
PHENIX phasing