7QF3

Structure of the R57Q mutant of miniSOG expressed in E. coli in regular LB medium


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 6GPU 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8293100 mM Tris-Hcl pH 8.0, 20 mM MgCl2, 28% PEG 4000, 15 mM CoCl2
Crystal Properties
Matthews coefficientSolvent content
2.0439.8

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 39.951α = 90
b = 39.951β = 90
c = 133.581γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 6MTOROIDAL MIRROR2014-05-21MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID290.9322ESRFID29

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)Rrim I (All)CC (Half)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
11.138.281000.084115.512.44510114.5
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Rrim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.11.141001.1990.5961.911.9

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE6GPU1.138.2845100227599.9710.1450.14430.170213.784
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]
-0.201-0.2010.401
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.412
r_dihedral_angle_4_deg16.212
r_dihedral_angle_3_deg13.574
r_dihedral_angle_1_deg7.136
r_scangle_it4.193
r_scangle_other4.191
r_rigid_bond_restr4.052
r_scbond_other3.847
r_scbond_it3.839
r_lrange_it3.598
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.412
r_dihedral_angle_4_deg16.212
r_dihedral_angle_3_deg13.574
r_dihedral_angle_1_deg7.136
r_scangle_it4.193
r_scangle_other4.191
r_rigid_bond_restr4.052
r_scbond_other3.847
r_scbond_it3.839
r_lrange_it3.598
r_lrange_other3.531
r_angle_refined_deg2.246
r_mcangle_other2.045
r_mcangle_it2.009
r_mcbond_it1.636
r_mcbond_other1.576
r_angle_other_deg1.541
r_metal_ion_refined0.328
r_symmetry_xyhbond_nbd_other0.31
r_symmetry_xyhbond_nbd_refined0.297
r_symmetry_nbd_refined0.293
r_nbd_other0.274
r_nbd_refined0.232
r_symmetry_nbd_other0.207
r_xyhbond_nbd_refined0.201
r_nbtor_refined0.195
r_chiral_restr0.132
r_symmetry_nbtor_other0.093
r_bond_refined_d0.02
r_gen_planes_refined0.015
r_gen_planes_other0.003
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms941
Nucleic Acid Atoms
Solvent Atoms100
Heterogen Atoms34

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing