6E7E

High resolution crystal structure of IncA soluble domain


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP82950.2 M sodium acetate trihydrate, pH 8.0, 20% w/v PEG3350
Crystal Properties
Matthews coefficientSolvent content
1.9436.47

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 38.323α = 90
b = 48.822β = 103.91
c = 41.738γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2017-07-24MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL9-20.98SSRLBL9-2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.121591.30.05547.97.35260610.8
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.121.16550.2984.7

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONSADTHROUGHOUT1.1214.9650533201090.70.1420.1410.169RANDOM15.7
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
0.61-0.02-0.49-0.1
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.385
r_dihedral_angle_4_deg14.61
r_dihedral_angle_3_deg12.34
r_dihedral_angle_1_deg4.556
r_long_range_B_refined3.523
r_long_range_B_other3.043
r_scangle_other2.734
r_scbond_it2.271
r_scbond_other2.269
r_rigid_bond_restr2.189
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.385
r_dihedral_angle_4_deg14.61
r_dihedral_angle_3_deg12.34
r_dihedral_angle_1_deg4.556
r_long_range_B_refined3.523
r_long_range_B_other3.043
r_scangle_other2.734
r_scbond_it2.271
r_scbond_other2.269
r_rigid_bond_restr2.189
r_mcangle_other1.69
r_mcangle_it1.688
r_angle_other_deg1.671
r_angle_refined_deg1.649
r_mcbond_it1.239
r_mcbond_other1.223
r_chiral_restr0.096
r_bond_refined_d0.012
r_gen_planes_refined0.008
r_bond_other_d0.001
r_gen_planes_other0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1376
Nucleic Acid Atoms
Solvent Atoms197
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction
HKL-2000data scaling
AutoSolphasing