X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 293.0
Details 0.25 M NaCl, 1.1 M (NH4)2SO4, 0.1 M Bis-Tris (pH 6.5)

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 54.14 α = 90
b = 58.41 β = 96.2
c = 78.87 γ = 90
Symmetry
Space Group I 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 345 mm plate Varimax Optics 2013-10-24
Diffraction Radiation
Monochromator Protocol
Mirror SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418 -- --

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
2.03 46.84 99.8 -- 0.057 -- 6.0 15916 15916 -- -3.0 19.1
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)
2.03 2.14 98.8 -- 0.238 10.3 5.4 --

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 2.03 46.84 -- -- -- 15124 791 99.82 -- 0.22846 0.22601 0.2749 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 2.03 2.083 -- 54 1127 0.348 0.331 -- 97.68
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.41
Anisotropic B[1][1] -0.16
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.99
Anisotropic B[2][2] 0.15
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.2
RMS Deviations
Key Refinement Restraint Deviation
r_angle_other_deg 0.792
r_dihedral_angle_3_deg 16.706
r_angle_refined_deg 1.38
r_dihedral_angle_1_deg 6.225
r_chiral_restr 0.076
r_mcbond_other 1.328
r_scangle_other 2.033
r_bond_other_d 0.001
r_scbond_it 1.258
r_gen_planes_other 0.001
r_dihedral_angle_2_deg 29.027
r_bond_refined_d 0.009
r_scbond_other 1.251
r_long_range_B_refined 3.64
r_gen_planes_refined 0.007
r_long_range_B_other 3.636
r_dihedral_angle_4_deg 20.31
r_mcbond_it 1.328
r_mcangle_other 2.145
r_mcangle_it 2.146
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms --
Nucleic Acid Atoms --
Heterogen Atoms --
Solvent Atoms --

Software

Software
Software Name Purpose
XDS data scaling
REFMAC refinement version: 5.8.0049
SCALA data scaling
PHASER phasing