☰ Navigation Tabs
Crystal structure of E. coli Bacterioferritin (BFR) with two ZN(II) ION sites at the Ferroxidase centre (ZN-BFR).
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2QP7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 298 APO-BFR CRYSTALIZED IN 1.8 M AMMONIUM SULFATE, 0.1 M TRI-SODIUM CITRATE PH 5.0. CRYSTAL WAS THEN SOAKED IN A CRYOPROTECTANT CONTAINING ZN2+ IONS AND BUFFERED WITH MOPS PH 7 INSTEAD OF CITRATE. PLEASE SEE PAPER FO FULL DETAILS., VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K, pH 5.00
Crystal Properties Matthews coefficient Solvent content 3.46 64.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 207.867 α = 90 b = 207.867 β = 90 c = 142.432 γ = 90
Symmetry Space Group P 42 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 CCD 2006-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX10.1 SRS PX10.1
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 2.95 45 89.2 0.081 20.9 9.1 58778 1
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) 2.95 3.11 89.2 0.168 7.9 6.5
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 2QP7 2.95 44.81 55780 2964 89 0.23 0.229 0.2214 0.252 0.2433 COPIED AND EXTENDED FROM 2QP7. 7.37
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] 0.37 0.37 -0.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.961 r_dihedral_angle_4_deg 23.014 r_dihedral_angle_3_deg 22.371 r_dihedral_angle_1_deg 4.879 r_scangle_it 3.482 r_scbond_it 2.13 r_angle_refined_deg 1.941 r_mcangle_it 1.181 r_mcbond_it 0.704 r_nbtor_refined 0.323
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.961 r_dihedral_angle_4_deg 23.014 r_dihedral_angle_3_deg 22.371 r_dihedral_angle_1_deg 4.879 r_scangle_it 3.482 r_scbond_it 2.13 r_angle_refined_deg 1.941 r_mcangle_it 1.181 r_mcbond_it 0.704 r_nbtor_refined 0.323 r_symmetry_hbond_refined 0.264 r_symmetry_vdw_refined 0.249 r_nbd_refined 0.24 r_metal_ion_refined 0.18 r_chiral_restr 0.162 r_xyhbond_nbd_refined 0.157 r_bond_refined_d 0.022 r_gen_planes_refined 0.006 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_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 15636 Nucleic Acid Atoms Solvent Atoms 214 Heterogen Atoms 362
Software Software Software Name Purpose MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling