4ZAL

Structure of UbiX E49Q mutant in complex with reduced FMN and dimethylallyl monophosphate


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP29712% PEG 3350, 150mM sodium thiocyanate, and 100mM Tris pH 7.2
Crystal Properties
Matthews coefficientSolvent content
2.6753.91

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 142.07α = 90
b = 142.07β = 90
c = 142.07γ = 90
Symmetry
Space GroupF 2 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELPSI PILATUS 6M2014-08-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I030.98DiamondI03

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)Rpim I (All)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
11.6242.8499.80.02416.96.628593
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Rpim I (All)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
1.621.661000.2922.86.7

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 DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1.6242.8428593152599.770.140910.139670.16345RANDOM26.468
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]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.113
r_dihedral_angle_4_deg20.138
r_dihedral_angle_3_deg13.285
r_long_range_B_refined7.289
r_long_range_B_other7.22
r_scangle_other6.303
r_dihedral_angle_1_deg5.961
r_scbond_it4.224
r_scbond_other4.186
r_mcangle_it3.499
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.113
r_dihedral_angle_4_deg20.138
r_dihedral_angle_3_deg13.285
r_long_range_B_refined7.289
r_long_range_B_other7.22
r_scangle_other6.303
r_dihedral_angle_1_deg5.961
r_scbond_it4.224
r_scbond_other4.186
r_mcangle_it3.499
r_mcangle_other3.497
r_mcbond_it2.578
r_mcbond_other2.576
r_angle_refined_deg2.384
r_angle_other_deg1.039
r_chiral_restr0.302
r_bond_refined_d0.026
r_gen_planes_refined0.018
r_bond_other_d0.003
r_gen_planes_other0.002
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_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1546
Nucleic Acid Atoms
Solvent Atoms139
Heterogen Atoms47

Software

Software
Software NamePurpose
REFMACrefinement
xia2data reduction
xia2data scaling
REFMACphasing