X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 289.0
Details 0.2M calcium acetate hydrate, pH 7.5, 20% (w/v) PEG 3350, 0.0125mg/ml Trypsin, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 61.77 α = 90
b = 61.77 β = 90
c = 122.38 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 mirror 2012-02-16
Diffraction Radiation
Monochromator Protocol
Si 111 crystal MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97931, 0.97948 APS 19-ID

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
2.55 31 99.4 0.071 -- -- 4.5 8235 8235 0.0 0.0 --
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)
2.55 2.59 100.0 0.692 -- 2.2 4.7 403

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 2.551 30.883 -- 1.35 8179 8179 379 99.38 -- 0.2097 0.2071 0.2689 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 2.5512 2.9202 -- 130 2526 0.2855 0.347 -- 100.0
X Ray Diffraction 2.9202 3.6781 -- 129 2559 0.2116 0.2972 -- 100.0
X Ray Diffraction 3.6781 30.8852 -- 120 2715 0.1925 0.2377 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 4.4262
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 4.4262
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -8.8525
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.009
f_chiral_restr 0.069
f_plane_restr 0.004
f_angle_d 1.204
f_dihedral_angle_d 14.615
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1255
Nucleic Acid Atoms 0
Heterogen Atoms 11
Solvent Atoms 5

Software

Software
Software Name Purpose
SBC-Collect data collection
SHELXD phasing
MLPHARE phasing
DM model building
RESOLVE model building
HKL-3000 phasing
PHENIX refinement version: (phenix.refine: 1.7.1_743)
HKL-3000 data reduction
HKL-3000 data scaling
DM phasing
RESOLVE phasing