☰ Navigation Tabs
Structure of Salmonella enteritidis Sen1395
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6V40 TTSA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 0.2 M sodium malonate pH 7.0 and 20% w/v PEG 3,350
Crystal Properties Matthews coefficient Solvent content 2.17 43.25
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.374 α = 91.41 b = 49.371 β = 107.55 c = 58.639 γ = 93.61
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 QUANTUM 315 2019-02-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-E 0.97920 APS 24-ID-E
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 1.9 49.27 89.85 0.064 0.98 11.25 2.6 26682
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.904 1.972 0.572 0.376
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 TTSA 1.9 49.27 25201 1317 89.81 0.20315 0.20144 0.2095 0.23616 0.2501 RANDOM 55.678
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] 1.98 -3.16 1.33 2.73 -1.32 -4.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.192 r_dihedral_angle_4_deg 19.949 r_dihedral_angle_3_deg 18.543 r_long_range_B_refined 9.936 r_long_range_B_other 9.936 r_scangle_other 6.058 r_dihedral_angle_1_deg 5.014 r_mcangle_it 4.615 r_mcangle_other 4.614 r_scbond_it 3.914
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.192 r_dihedral_angle_4_deg 19.949 r_dihedral_angle_3_deg 18.543 r_long_range_B_refined 9.936 r_long_range_B_other 9.936 r_scangle_other 6.058 r_dihedral_angle_1_deg 5.014 r_mcangle_it 4.615 r_mcangle_other 4.614 r_scbond_it 3.914 r_scbond_other 3.913 r_mcbond_it 3.106 r_mcbond_other 3.105 r_angle_refined_deg 1.653 r_angle_other_deg 1.451 r_chiral_restr 0.075 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 Atoms Number Protein Atoms 2835 Nucleic Acid Atoms Solvent Atoms 51 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling PHASER phasing