X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 298.0
Details 11-14% w/v PEG3000, 150 mM lithium sulfate, 100 mM imidazole, 2% v/v ethanol, 10% v/v glycerol, 20 mM magnesium chloride , pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 48.41 α = 90
b = 71.07 β = 98.91
c = 81.64 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 MARMOSAIC 325 mm CCD -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06DA 0.97 SLS X06DA

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
1.72 28.61 100.0 0.072 -- -- 3.7 210679 57664 -- -- 20.77
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)
1.72 1.81 100.0 0.555 -- 2.0 3.6 30188

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 1.72 28.0 -- -- -- 55150 2949 99.97 -- 0.17019 0.16793 0.21299 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 1.72 1.765 -- 211 4044 0.272 0.3 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.595
Anisotropic B[1][1] 0.77
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.04
Anisotropic B[2][2] 0.37
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.15
RMS Deviations
Key Refinement Restraint Deviation
r_scbond_it 3.594
r_scangle_it 5.774
r_angle_refined_deg 2.112
r_dihedral_angle_1_deg 6.105
r_mcangle_it 2.336
r_chiral_restr 0.17
r_bond_refined_d 0.028
r_mcbond_it 1.394
r_dihedral_angle_4_deg 16.935
r_dihedral_angle_2_deg 38.197
r_gen_planes_refined 0.011
r_dihedral_angle_3_deg 14.501
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4123
Nucleic Acid Atoms 0
Heterogen Atoms 134
Solvent Atoms 377

Software

Software
Software Name Purpose
MAR345dtb data collection
AMoRE phasing
REFMAC refinement version: 5.5.0102
MOSFLM data reduction
SCALA data scaling