X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.8
Temperature 298.0
Details 0.1 M TRIS pH 8.8, 18% (w/v) polyethylene glycol 4000, 0.2 M MgCl2, VAPOR DIFFUSION, SITTING DROP, temperature 298.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 188.53 α = 90
b = 94.97 β = 89.97
c = 204.08 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2011-09-10
Diffraction Radiation
Monochromator Protocol
optical system that acts as a narrow-band-pass SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.2.2 0.9999 ALS 8.2.2

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 93.8 -- 0.044 -- 2.4 112427 112427 2.0 2.0 --
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)
3.198 3.37 93.8 -- 0.539 1.8 2.3 --

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 20.0 -- -- 108754 108754 5710 96.03 -- 0.26631 0.26434 0.30474 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 3.281 -- 364 6947 0.295 0.321 -- 85.36
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 151.765
Anisotropic B[1][1] -4.2
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -1.31
Anisotropic B[2][2] 9.18
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.98
RMS Deviations
Key Refinement Restraint Deviation
r_scbond_it 5.767
r_dihedral_angle_2_deg 29.247
r_dihedral_angle_4_deg 11.839
r_bond_other_d 0.0
r_angle_other_deg 3.544
r_mcbond_it 5.288
r_gen_planes_refined 0.007
r_gen_planes_other 0.006
r_scangle_it 8.736
r_dihedral_angle_1_deg 6.369
r_mcangle_it 7.969
r_dihedral_angle_3_deg 14.564
r_bond_refined_d 0.01
r_angle_refined_deg 1.272
r_chiral_restr 0.067
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 41665
Nucleic Acid Atoms 3566
Heterogen Atoms 34
Solvent Atoms 0

Software

Software
Software Name Purpose
BOS data collection
PHASER phasing
PHENIX model building
REFMAC refinement version: 5.5.0109
iMOSFLM data reduction
SCALA data scaling
PHENIX phasing