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Ferritin with Gc MtrE loop 1 inserted at His34
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3BVF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 295 20% glycerol, 1.6 M NaCl, 8% PEG 6000, Hepes
Crystal Properties Matthews coefficient Solvent content 2.73 54.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.412 α = 90 b = 128.412 β = 90 c = 165.041 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 138 IMAGE PLATE RIGAKU RAXIS IV++ 2016-10-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
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 2 20 99.8 0.138 0.153 0.064 7.5 5.6 179122
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.03 100 0.895 0.991 0.423 0.69 5.4 8966
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 3bvf 2 20 170104 9002 99.72 0.1695 0.1681 0.1778 0.1961 0.2043 RANDOM 27.607
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] 0.22 0.22 -0.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.111 r_dihedral_angle_4_deg 18.396 r_dihedral_angle_3_deg 14.604 r_dihedral_angle_1_deg 4.713 r_mcangle_it 3.291 r_mcbond_it 2.285 r_mcbond_other 2.282 r_angle_refined_deg 2.206 r_angle_other_deg 1.181 r_chiral_restr 0.148
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.111 r_dihedral_angle_4_deg 18.396 r_dihedral_angle_3_deg 14.604 r_dihedral_angle_1_deg 4.713 r_mcangle_it 3.291 r_mcbond_it 2.285 r_mcbond_other 2.282 r_angle_refined_deg 2.206 r_angle_other_deg 1.181 r_chiral_restr 0.148 r_bond_refined_d 0.026 r_gen_planes_refined 0.011 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 16422 Nucleic Acid Atoms Solvent Atoms 1398 Heterogen Atoms 116
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling PHASER phasing HKL data scaling HKL data reduction