X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details 18% PEG5000 MME, 4% AMMONIUM SULFATE, 100MM NA-CACODYLATE PH6.5, 20% GLYCEROL, pH 6.50

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 49.56 α = 88.83
b = 79.56 β = 89.58
c = 132.4 γ = 83.58
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-1 -- ESRF ID14-1

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 20 97.4 0.066 -- -- 1.89 -- 155379 -- -- --
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 1.94 89.8 0.269 -- 3.08 1.75 --

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 1.89 20.0 -- -- -- 154093 730 96.6 -- 0.147 0.147 0.203 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 1.89 1.94 -- 40 9799 0.164 0.27 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 14.75
Anisotropic B[1][1] 0.12
Anisotropic B[1][2] 0.44
Anisotropic B[1][3] -0.34
Anisotropic B[2][2] -1.25
Anisotropic B[2][3] 0.48
Anisotropic B[3][3] 1.02
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_vdw_refined 0.123
r_xyhbond_nbd_refined 0.186
r_nbd_refined 0.192
r_gen_planes_other 0.003
r_nbd_other 0.257
r_nbtor_other 0.084
r_symmetry_vdw_other 0.308
r_mcangle_it 1.899
r_mcbond_it 1.311
r_bond_refined_d 0.016
r_gen_planes_refined 0.006
r_symmetry_hbond_refined 0.193
r_scangle_it 4.089
r_bond_other_d 0.002
r_dihedral_angle_1_deg 7.002
r_angle_other_deg 1.484
r_chiral_restr 0.104
r_angle_refined_deg 1.517
r_scbond_it 2.929
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 15319
Nucleic Acid Atoms 0
Heterogen Atoms 6
Solvent Atoms 1910

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.13
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing