X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.3
Temperature 293.0
Details 14% (w/v) PEG3350, 4% (v/v) tert-butanol, and 0.2 M sodium citrate

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 159.87 α = 90
b = 159.87 β = 90
c = 614.43 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL PSI PILATUS 6M -- 2014-08-28
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X25 1.100 NSLS X25

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
3.2 50 97.5 0.148 -- 7.032 3.0 -- 129365 -- -- --
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)
3.2 3.31 87.4 0.901 -- -- 2.7 11372

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 3.2 49.93 -- -- -- 122246 6469 97.15 -- 0.22137 0.21904 0.26579 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 3.2 3.373 -- 899 16119 0.334 0.377 -- 89.55
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 96.326
Anisotropic B[1][1] 2.25
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.25
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.5
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_2_deg 36.911
r_gen_planes_other 0.001
r_dihedral_angle_1_deg 6.334
r_chiral_restr 0.075
r_angle_other_deg 0.824
r_bond_refined_d 0.011
r_dihedral_angle_4_deg 17.434
r_bond_other_d 0.002
r_dihedral_angle_3_deg 18.315
r_gen_planes_refined 0.006
r_angle_refined_deg 1.532
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 32651
Nucleic Acid Atoms 0
Heterogen Atoms 126
Solvent Atoms 0

Software

Software
Software Name Purpose
REFMAC refinement version: 5.7.0029
SCALEPACK data scaling
PHASER phasing
Coot model building
PDB_EXTRACT data extraction version: 3.15
DENZO data reduction