X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 0.2 M NA2SO4, 0.1 M BIS-TRIS-PROPANE PH 7.5, 20% PEG3350, 10% ETHYLENE-GLYCOL, 0.5% DMSO, SITTING DROP, VAPOR DIFFUSION, 277 K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 98.16 α = 90
b = 98.16 β = 90
c = 80.37 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU VARIMAX MIRRORS 2006-04-04
Diffraction Radiation
Monochromator Protocol
VARIMAX MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU FRE -- -- --

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
1.9 25.09 99.7 0.06 -- -- 5.27 -- 34673 -- 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)
1.9 2.0 98.4 0.5 -- 5.5 3.91 --

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 1.9 85.13 -- -- -- 32879 1765 99.7 -- 0.18 0.179 0.2 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 1.9 1.95 -- 146 2335 0.319 0.324 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.59
Anisotropic B[1][1] 0.34
Anisotropic B[1][2] 0.17
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.34
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.52
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.626
r_scbond_it 1.631
r_mcangle_it 1.207
r_mcbond_it 0.761
r_nbd_refined 0.202
r_gen_planes_other 0.001
r_gen_planes_refined 0.004
r_chiral_restr 0.08
r_dihedral_angle_4_deg 15.932
r_dihedral_angle_3_deg 11.661
r_dihedral_angle_2_deg 33.508
r_dihedral_angle_1_deg 5.467
r_angle_other_deg 0.882
r_angle_refined_deg 1.305
r_bond_other_d 0.001
r_bond_refined_d 0.011
r_nbd_other 0.185
r_nbtor_refined 0.177
r_nbtor_other 0.08
r_xyhbond_nbd_refined 0.148
r_symmetry_vdw_refined 0.137
r_symmetry_vdw_other 0.327
r_symmetry_hbond_refined 0.198
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2183
Nucleic Acid Atoms 0
Heterogen Atoms 40
Solvent Atoms 168

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.2.0019 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0019 refinement
PHASER model building