X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 0.85 M AMMONIUM DIHYDROGEN PHOSPHATE AND 0.5% (W/V) OCTYLGLUCOSIDE

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 123.71 α = 90
b = 123.71 β = 90
c = 127.31 γ = 120
Symmetry
Space Group P 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD (SATURN 944) RIGAKU -- 2012-09-12
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE -- -- -- --

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
2.4 21.56 100.0 0.06 -- -- 3.7 -- 85072 -- 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)
2.4 2.49 99.9 0.44 -- 1.2 2.2 --

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 2.4 21.56 -- -- -- 80521 4258 99.48 -- 0.24817 0.2467 0.27543 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 2.4 2.462 -- 346 5890 0.708 0.632 -- 98.66
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 52.565
Anisotropic B[1][1] 11.39
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 11.39
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -22.78
RMS Deviations
Key Refinement Restraint Deviation
r_long_range_B_other 7.262
r_long_range_B_refined 7.263
r_scangle_other 4.817
r_scbond_other 3.135
r_scbond_it 3.139
r_mcangle_other 4.358
r_mcangle_it 4.358
r_mcbond_other 2.862
r_mcbond_it 2.862
r_gen_planes_other 0.002
r_gen_planes_refined 0.005
r_chiral_restr 0.08
r_dihedral_angle_4_deg 22.391
r_dihedral_angle_3_deg 15.696
r_dihedral_angle_2_deg 39.3
r_dihedral_angle_1_deg 6.233
r_angle_other_deg 0.908
r_angle_refined_deg 1.384
r_bond_other_d 0.003
r_bond_refined_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8443
Nucleic Acid Atoms 0
Heterogen Atoms 100
Solvent Atoms 459

Software

Computing
Computing Package Purpose
D*TREK Data Reduction (intensity integration)
D*TREK Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.7.0032 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.7.0032 refinement
PHASER model building