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Structure of the complex between BtuB and Colicin E3 Receptor binding domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1NQE PDB ENTRY 1NQE
Crystallization Crystal Properties Matthews coefficient Solvent content 4.5 72.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.933 α = 90 b = 80.098 β = 90 c = 233.595 γ = 90
Symmetry Space Group P 21 21 21
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 SBC M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM APS 19-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.75 50 37175
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 (All) 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 PDB ENTRY 1NQE 2.75 37.88 35281 1864 96.71 0.247 0.247 0.244 0.2328 0.293 0.2795 RANDOM 33.257
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] -5.66 6.6 -0.95
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 8.574 r_scangle_it 2.782 r_angle_refined_deg 1.868 r_scbond_it 1.754 r_mcangle_it 0.969 r_angle_other_deg 0.936 r_mcbond_it 0.5 r_nbd_other 0.249 r_symmetry_vdw_other 0.228 r_nbd_refined 0.225
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 8.574 r_scangle_it 2.782 r_angle_refined_deg 1.868 r_scbond_it 1.754 r_mcangle_it 0.969 r_angle_other_deg 0.936 r_mcbond_it 0.5 r_nbd_other 0.249 r_symmetry_vdw_other 0.228 r_nbd_refined 0.225 r_chiral_restr 0.16 r_xyhbond_nbd_refined 0.147 r_symmetry_vdw_refined 0.102 r_nbtor_other 0.096 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_refined r_symmetry_hbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5472 Nucleic Acid Atoms Solvent Atoms 10 Heterogen Atoms 232
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling AMoRE phasing