X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5
Temperature 292.0
Details 18-22% PEG 8000, 100-130 mM MgAc2, 100 mM citric acid pH 5.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 59.66 α = 90
b = 87.81 β = 90
c = 98.28 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS3 6M -- 2016-01-23
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I03 0.97625 Diamond I03

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
1.49 49.35 99.9 0.045 -- -- 6.4 -- 84863 -- -- 19.368
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)
1.49 1.53 99.9 1.014 -- 1.7 6.5 --

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 1.49 49.35 -- 0.0 -- 80613 4172 99.84 -- 0.1735 0.1724 0.1953 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 1.49 1.529 -- 309 5864 0.294 0.324 -- 99.9
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.229
Anisotropic B[1][1] 0.52
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.97
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.49
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_3_deg 11.243
r_mcbond_it 0.921
r_dihedral_angle_1_deg 5.223
r_mcbond_other 0.912
r_angle_refined_deg 1.733
r_gen_planes_other 0.013
r_mcangle_it 1.429
r_bond_other_d 0.001
r_angle_other_deg 1.627
r_bond_refined_d 0.016
r_chiral_restr 0.108
r_dihedral_angle_2_deg 30.301
r_gen_planes_refined 0.01
r_dihedral_angle_4_deg 15.176
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3784
Nucleic Acid Atoms 0
Heterogen Atoms 58
Solvent Atoms 349

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0222
xia2 data scaling version: 0.4.0.0
PDB_EXTRACT data extraction version: 3.22
xia2 data reduction version: 0.4.0.0