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The structure of the BamACDE subcomplex from E. coli
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3TGO PDB IDs 3TGO 4C4V 3Q6B 2KM7 3EFC experimental model PDB 4C4V PDB IDs 3TGO 4C4V 3Q6B 2KM7 3EFC experimental model PDB 3Q6B PDB IDs 3TGO 4C4V 3Q6B 2KM7 3EFC experimental model PDB 2KM7 PDB IDs 3TGO 4C4V 3Q6B 2KM7 3EFC experimental model PDB 3EFC PDB IDs 3TGO 4C4V 3Q6B 2KM7 3EFC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 294 100 mM Tris-HCl, pH 8.5, 200 mM MgCl2, 10 mM MnCl2, and 8% PEG 4000
Crystal Properties Matthews coefficient Solvent content 4.17 70.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 234.848 α = 90 b = 109.231 β = 95.04 c = 103.988 γ = 90
Symmetry Space Group C 1 2 1
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 RAYONIX MX300-HS 2015-08-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 3.392 50 99.6 0.119 0.129 0.058 5.8 6.3 36099 133.43
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.392 3.52 99.9 0.875 0.485 6.4 3585
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE PDB IDs 3TGO 4C4V 3Q6B 2KM7 3EFC 3.392 29.914 1.34 36000 1994 98.8 0.2405 0.2382 0.2389 0.2811 0.2836
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 17.176 f_angle_d 0.973 f_chiral_restr 0.046 f_plane_restr 0.005 f_bond_d 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9451 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose PHENIX refinement SCALEPACK data scaling PDB_EXTRACT data extraction PHASER phasing DENZO data reduction