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Crystal structure of the periplasmic aliphatic sulphonate binding protein SsuA from Escherichia coli
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3E4R PDB ENTRY 3E4R
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 293 22% PEG3350, 0.2M SODIUM FORMATE AT 293K IN 2 DAYS, pH 7.5
Crystal Properties Matthews coefficient Solvent content 2.18 43.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.891 α = 90 b = 96.026 β = 90 c = 142.401 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC CCD MIRRORS 2009-09-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.75 71.2 99.1 0.06 9.7 3.4 57014 22.1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.75 1.84 99.2 0.41 1.8 3.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 3E4R 1.75 79.62 54060 2889 98.86 0.18784 0.18585 0.212 0.22538 0.2482 RANDOM 13.746
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] 0.1 0.02 -0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.923 r_dihedral_angle_4_deg 15.51 r_dihedral_angle_3_deg 14.129 r_dihedral_angle_1_deg 5.513 r_scangle_it 4.248 r_scbond_it 2.613 r_angle_refined_deg 1.619 r_mcangle_it 1.555 r_mcbond_it 0.909 r_chiral_restr 0.109
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.923 r_dihedral_angle_4_deg 15.51 r_dihedral_angle_3_deg 14.129 r_dihedral_angle_1_deg 5.513 r_scangle_it 4.248 r_scbond_it 2.613 r_angle_refined_deg 1.619 r_mcangle_it 1.555 r_mcbond_it 0.909 r_chiral_restr 0.109 r_bond_refined_d 0.017 r_gen_planes_refined 0.009 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4628 Nucleic Acid Atoms Solvent Atoms 426 Heterogen Atoms 12
Software Software Software Name Purpose XDS data reduction SCALA data scaling BALBES phasing MOLREP phasing REFMAC refinement