☰ Navigation Tabs
Crystal structure of Frog M-ferritin E130A_K168E_H169D mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3KA3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 277 2.0 M MgCl2 and 100 mM Bicine (pH 9.0)
Crystal Properties Matthews coefficient Solvent content 3.19 61.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 183.901 α = 90 b = 183.901 β = 90 c = 183.901 γ = 90
Symmetry Space Group F 4 3 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 103 CCD MARMOSAIC 225 mm CCD 2015-05-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON RRCAT INDUS-2 BEAMLINE PX-BL21 0.97947 RRCAT INDUS-2 PX-BL21
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 1.48 37.57 100 0.999 24.6 19.1 23845
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.48 1.55 0.961
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3KA3 1.48 37.57 23722 2277 99.96 0.1454 0.1507 0.1728 0.1764 RANDOM 17.48
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 r_dihedral_angle_3_deg 14.136 r_scangle_it 11.032 r_scangle_other 10.948 r_mcangle_it 8.218 r_mcangle_other 7.758 r_scbond_it 7.428 r_scbond_other 7.424 r_dihedral_angle_1_deg 5.221 r_mcbond_it 5.138 r_mcbond_other 5.074
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.136 r_scangle_it 11.032 r_scangle_other 10.948 r_mcangle_it 8.218 r_mcangle_other 7.758 r_scbond_it 7.428 r_scbond_other 7.424 r_dihedral_angle_1_deg 5.221 r_mcbond_it 5.138 r_mcbond_other 5.074 r_rigid_bond_restr 3.561 r_angle_refined_deg 1.618 r_angle_other_deg 0.577 r_symmetry_metal_ion_refined 0.278 r_nbd_refined 0.23 r_nbtor_refined 0.189 r_xyhbond_nbd_refined 0.156 r_nbd_other 0.132 r_chiral_restr 0.077 r_metal_ion_refined 0.05 r_bond_refined_d 0.019 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_2_deg r_dihedral_angle_4_deg r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_other r_long_range_B_refined r_long_range_B_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1403 Nucleic Acid Atoms Solvent Atoms 190 Heterogen Atoms 15
Software Software Software Name Purpose REFMAC refinement Coot model building iMOSFLM data reduction Aimless data scaling MOLREP phasing