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X-ray crystal structure of Enterobacter cloacae OmpE36 porin.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2J1N PDB ENTRY 2J1N
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 0.4M AMMONIUM SULFATE, 0.1M MES, 10% W/V PEG 3350, PH6.5
Crystal Properties Matthews coefficient Solvent content 3.6 65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.749 α = 90 b = 123.26 β = 91.01 c = 116.01 γ = 90
Symmetry Space Group P 1 21 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 PIXEL DECTRIS PIXEL 2014-11-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 Diamond I02
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 1.45 48.92 100 0.08 8 3.7 529555 -3
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 1.45 1.47 100 0.05 1.6 3.7
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 PDB ENTRY 2J1N 1.45 115.99 529555 13912 99.96 0.15613 0.15543 0.18308 0.199 RANDOM 18.211
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] 0.23 -1.16 -1.03 0.84
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.018 r_sphericity_free 34.861 r_sphericity_bonded 19.221 r_dihedral_angle_4_deg 17.019 r_dihedral_angle_3_deg 11.087 r_dihedral_angle_1_deg 6.578 r_scbond_it 4.095 r_mcangle_it 3.044 r_rigid_bond_restr 2.71 r_mcbond_it 2.562
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.018 r_sphericity_free 34.861 r_sphericity_bonded 19.221 r_dihedral_angle_4_deg 17.019 r_dihedral_angle_3_deg 11.087 r_dihedral_angle_1_deg 6.578 r_scbond_it 4.095 r_mcangle_it 3.044 r_rigid_bond_restr 2.71 r_mcbond_it 2.562 r_mcbond_other 2.562 r_angle_refined_deg 1.52 r_angle_other_deg 0.885 r_chiral_restr 0.116 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 16092 Nucleic Acid Atoms Solvent Atoms 1910 Heterogen Atoms 1513
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing