X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 293.0
Details 10%(w/v) PEG 8K, 20%(v/v) ethylene glycol, 0.03M of each divalent cation and 0.1M MOPS/HEPES-Na

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 76.6 α = 89.94
b = 90.73 β = 99.37
c = 93 γ = 104.31
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2015-03-23
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM14 0.9797 ESRF BM14

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
2.17 50 98.1 0.041 -- -- 2.7 -- 123090 -- -- --
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)
2.17 2.21 93.5 0.479 -- -- 2.6 5878

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 2.17 40.29 -- 0.0 -- 115317 6101 96.56 -- 0.1773 0.1748 0.2239 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 2.175 2.231 -- 378 6656 0.262 0.293 0.0 75.85
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 33.867
Anisotropic B[1][1] -0.65
Anisotropic B[1][2] -0.01
Anisotropic B[1][3] -0.07
Anisotropic B[2][2] 0.14
Anisotropic B[2][3] 0.01
Anisotropic B[3][3] 0.48
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.012
r_dihedral_angle_1_deg 6.378
r_dihedral_angle_4_deg 16.62
r_dihedral_angle_2_deg 37.127
r_dihedral_angle_3_deg 14.546
r_gen_planes_refined 0.008
r_chiral_restr 0.105
r_angle_refined_deg 1.547
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 15288
Nucleic Acid Atoms 0
Heterogen Atoms 367
Solvent Atoms 730

Software

Software
Software Name Purpose
MxCuBE data collection
HKL-2000 data scaling
PHASER phasing
REFMAC refinement version: 5.7.0029
PDB_EXTRACT data extraction version: 3.22
MxCuBE data reduction
HKL data scaling