5ISV

Crystal structure of the ribosomal-protein-S18-alanine N-acetyltransferase from Escherichia coli


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2930.01 M tri-sodium citrate, 33% (w/v) PEG6000
Crystal Properties
Matthews coefficientSolvent content
1.8734.28

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 40.222α = 93.74
b = 41.785β = 90.08
c = 46.404γ = 116.52
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCDberyllium lenses2016-02-08MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 21-ID-G0.97857APS21-ID-G

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge 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
11.3530950.04538.053.956272
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.351.37900.3353.33.6

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (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 REPLACEMENTTHROUGHOUT2CNT1.353053373289994.830.158370.155710.20902RANDOM28.192
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]
0.381.85-1.030.02-0.36-2.08
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.529
r_sphericity_free36.421
r_dihedral_angle_4_deg15.716
r_dihedral_angle_3_deg14.122
r_sphericity_bonded12.814
r_dihedral_angle_1_deg5.696
r_long_range_B_refined4.557
r_long_range_B_other3.952
r_scangle_other3.103
r_scbond_other2.584
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.529
r_sphericity_free36.421
r_dihedral_angle_4_deg15.716
r_dihedral_angle_3_deg14.122
r_sphericity_bonded12.814
r_dihedral_angle_1_deg5.696
r_long_range_B_refined4.557
r_long_range_B_other3.952
r_scangle_other3.103
r_scbond_other2.584
r_scbond_it2.582
r_mcangle_it2.408
r_mcangle_other2.407
r_rigid_bond_restr2.182
r_mcbond_it1.948
r_mcbond_other1.946
r_angle_refined_deg1.662
r_angle_other_deg1.178
r_chiral_restr0.108
r_bond_refined_d0.015
r_gen_planes_refined0.008
r_gen_planes_other0.003
r_bond_other_d0.001
r_xyhbond_nbd_refined
r_symmetry_metal_ion_other
r_symmetry_vdw_other
r_metal_ion_other
r_metal_ion_refined
r_xyhbond_nbd_other
r_symmetry_hbond_refined
r_nbtor_other
r_scangle_it
r_nbtor_refined
r_nbd_other
r_nbd_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_vdw_refined
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2463
Nucleic Acid Atoms
Solvent Atoms323
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
HKL-3000data reduction
HKL-3000data scaling
PHASERphasing