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 0.1M Hepes buffer, 2% PEG-400, 2M Ammonium sulphate. Full length protein was crystallized in presence of V8 protease., pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 49.87 α = 90
b = 54.81 β = 90
c = 73.99 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2011-10-19
Diffraction Radiation
Monochromator Protocol
double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.9792 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
1.87 41.4 99.9 0.107 -- -- 6.8 17270 17270 0.0 0.0 36.8
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)
1.88 1.91 100.0 0.811 -- 2.2 5.6 860

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
SAD 1.87 41.4 0.0 0.0 17222 17222 871 99.49 0.1783 0.1783 0.1757 0.2301 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 1.872 1.92 1069 55 1014 0.243 0.324 -- 93.28
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 31.4572
Anisotropic B[1][1] 0.48
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.9
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.42
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.83
r_bond_refined_d 0.019
r_dihedral_angle_3_deg 14.115
r_gen_planes_other 0.001
r_dihedral_angle_2_deg 33.181
r_dihedral_angle_4_deg 20.231
r_chiral_restr 0.116
r_dihedral_angle_1_deg 6.253
r_gen_planes_refined 0.01
r_bond_other_d 0.001
r_angle_other_deg 1.036
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1483
Nucleic Acid Atoms 0
Heterogen Atoms 8
Solvent Atoms 145

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
REFMAC refinement version: 5.6.0117
PDB_EXTRACT data extraction version: 3.11
SBC-Collect data collection
HKL-3000 data reduction
HKL-3000 data scaling
SHELXD phasing
MLPHARE phasing
DM phasing
ARP/wARP model building
HKL-3000 phasing