5ZMO

Sulfur binding domain of ScoMcrA complexed with phosphorothioated DNA


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP2870.1M HEPES, pH 7.5, 0.8M ammonium phosphate monobasic, 0.8M potassium phosphate monobasic, 1% glycerol
Crystal Properties
Matthews coefficientSolvent content
2.3543.4

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 88.022α = 90
b = 57.148β = 101.35
c = 42.32γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 S 6M2015-04-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRF BEAMLINE BL19U10.97853SSRFBL19U1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
11.69509711.43.822244
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.71.76

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 DIFFRACTIONTHROUGHOUT1.6947.6521142110196.390.19010.18810.2273RANDOM31.482
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]
-2.84-0.155.31-2.23
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.845
r_dihedral_angle_3_deg15.581
r_dihedral_angle_4_deg14.088
r_dihedral_angle_1_deg5.634
r_angle_refined_deg1.888
r_angle_other_deg1.241
r_chiral_restr0.141
r_bond_refined_d0.017
r_gen_planes_refined0.012
r_bond_other_d0.002
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.845
r_dihedral_angle_3_deg15.581
r_dihedral_angle_4_deg14.088
r_dihedral_angle_1_deg5.634
r_angle_refined_deg1.888
r_angle_other_deg1.241
r_chiral_restr0.141
r_bond_refined_d0.017
r_gen_planes_refined0.012
r_bond_other_d0.002
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1239
Nucleic Acid Atoms287
Solvent Atoms99
Heterogen Atoms15

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data scaling
PDB_EXTRACTdata extraction