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Complex of E. coli LolA and periplasmic domain of LolC
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5NAA 5NAA, 1IWL experimental model PDB 1IWL 5NAA, 1IWL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 288.15 45% w/v Poly(acrylic acid sodium salt) 2100, 100 mM HEPES pH 6.5
Crystal Properties Matthews coefficient Solvent content 2.39 48.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 146.01 α = 90 b = 68.23 β = 90 c = 94.78 γ = 90
Symmetry Space Group P 21 21 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 PIXEL DECTRIS PILATUS3 6M 2017-04-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID30B 0.9763 ESRF ID30B
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 2 73.01 95.8 0.103 10.6 10.2 61745
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.05 97 0.844 0.883 2.2 9.9 4379
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 5NAA, 1IWL 2 73.01 58544 3123 95.22 0.2046 0.20222 0.2113 0.2492 0.2553 RANDOM 45.619
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] -3.21 0.07 3.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.063 r_dihedral_angle_4_deg 16.477 r_dihedral_angle_3_deg 14.245 r_long_range_B_other 9.953 r_long_range_B_refined 9.947 r_scangle_other 7.937 r_dihedral_angle_1_deg 7.216 r_mcangle_it 6.191 r_mcangle_other 6.191 r_scbond_it 5.319
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.063 r_dihedral_angle_4_deg 16.477 r_dihedral_angle_3_deg 14.245 r_long_range_B_other 9.953 r_long_range_B_refined 9.947 r_scangle_other 7.937 r_dihedral_angle_1_deg 7.216 r_mcangle_it 6.191 r_mcangle_other 6.191 r_scbond_it 5.319 r_scbond_other 5.316 r_mcbond_it 4.337 r_mcbond_other 4.336 r_angle_refined_deg 1.854 r_angle_other_deg 1.061 r_chiral_restr 0.125 r_bond_refined_d 0.019 r_gen_planes_refined 0.009 r_bond_other_d 0.002 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 6506 Nucleic Acid Atoms Solvent Atoms 152 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction Aimless data scaling PHASER phasing