☰ Navigation Tabs
Crystal structure of Salmonella effector protein SopA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other SeMet substituted SopA structure model
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 0.2M sodium potassium phosphate, 0.1M bis-Tris propane (pH6.5), 20% PEG3350, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.44 49.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.72 α = 90 b = 79.72 β = 90 c = 212.731 γ = 90
Symmetry Space Group P 41 2 2
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 MARMOSAIC 300 mm CCD 2006-03-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 1.07223 APS 23-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.1 50 98.6 0.072 14.8 12.7 37593 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.2 98.3 0.338 2.8 9.2
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT SeMet substituted SopA structure model 2.1 50 35698 1887 91.76 0.20644 0.20429 0.24916 0.2659 RANDOM 48.902
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] 0.54 0.54 -1.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.905 r_dihedral_angle_4_deg 16.976 r_dihedral_angle_3_deg 15.13 r_dihedral_angle_1_deg 6.26 r_scangle_it 4.495 r_mcangle_it 3.414 r_scbond_it 2.821 r_mcbond_it 2.7 r_angle_refined_deg 1.191 r_nbtor_refined 0.305
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.905 r_dihedral_angle_4_deg 16.976 r_dihedral_angle_3_deg 15.13 r_dihedral_angle_1_deg 6.26 r_scangle_it 4.495 r_mcangle_it 3.414 r_scbond_it 2.821 r_mcbond_it 2.7 r_angle_refined_deg 1.191 r_nbtor_refined 0.305 r_symmetry_vdw_refined 0.22 r_nbd_refined 0.215 r_symmetry_hbond_refined 0.136 r_xyhbond_nbd_refined 0.13 r_chiral_restr 0.104 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4832 Nucleic Acid Atoms Solvent Atoms 134 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling AMoRE phasing