X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 293.0
Details 20% (w/v) polyethylene glycol (PEG) 3350, 200mM sodium thiocyanate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 40.91 α = 90
b = 71.08 β = 90
c = 72.73 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 BRUKER SMART 6500 -- 2011-10-10
Diffraction Radiation
Monochromator Protocol
horizontal focusing mirror SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.9 SPRING-8 BL44XU

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
1.5 50 99.9 0.106 0.106 -- 13.7 -- 35110 0.0 -3.0 --
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)
1.5 1.53 100.0 0.419 0.419 0.419 12.7 1742

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 1.5 50.0 -- -- -- 32818 1741 99.56 -- 0.15801 0.15654 0.1863 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 1.5 1.539 -- 127 2374 0.188 0.25 -- 99.64
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 17.172
Anisotropic B[1][1] -0.67
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.04
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.7
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.458
r_scbond_it 3.398
r_mcangle_it 2.175
r_mcbond_it 1.466
r_gen_planes_refined 0.02
r_chiral_restr 0.084
r_dihedral_angle_4_deg 12.062
r_dihedral_angle_3_deg 10.84
r_dihedral_angle_2_deg 32.304
r_dihedral_angle_1_deg 7.429
r_angle_refined_deg 1.0
r_bond_refined_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1962
Nucleic Acid Atoms 0
Heterogen Atoms 12
Solvent Atoms 315

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL Data Reduction (intensity integration)
HKL Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.5.0109 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
REFMAC5 version: refmac_5.5.0109 refinement
DM version: 6.1 density modification
MOLREP molecular replacement
HKL data reduction