X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 25% (W/V) PEG 1500, 100MM MMT BUFFER, 5-6 MM LEVAN BIOSE.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 38.62 α = 90
b = 38.62 β = 90
c = 162.39 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU R-AXIS IV MIRRORS 2011-11-17
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 -- -- --

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
1.65 40.6 98.7 0.07 -- -- 8.9 -- 17659 -- 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)
1.65 1.74 91.3 0.49 -- 3.1 5.0 --

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 1.65 54.13 -- -- -- 16699 899 98.58 -- 0.17998 0.1761 0.25591 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 1.65 1.693 -- 52 928 0.192 0.27 -- 82.63
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 17.258
Anisotropic B[1][1] -0.07
Anisotropic B[1][2] -0.03
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.07
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.1
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_3_deg 13.806
r_dihedral_angle_1_deg 8.026
r_dihedral_angle_2_deg 36.614
r_dihedral_angle_4_deg 21.754
r_angle_refined_deg 1.456
r_bond_refined_d 0.012
r_sphericity_free 15.496
r_rigid_bond_restr 3.432
r_sphericity_bonded 12.626
r_chiral_restr 0.104
r_gen_planes_refined 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1260
Nucleic Acid Atoms 0
Heterogen Atoms 13
Solvent Atoms 56

Software

Software
Software Name Purpose
REFMAC refinement version: 5.6.0117
XDS data reduction
SCALA data scaling
MOLREP phasing