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Crystal structure of Ferritin (TM1128) from Thermotoga maritima at 2.00 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EUM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6 277 2.4M (NH4)2SO4, 0.1M MES pH 6.0, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K, pH 6.00
Crystal Properties Matthews coefficient Solvent content 3.2 61.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 175.634 α = 90 b = 175.634 β = 90 c = 354.843 γ = 120
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 ADSC 2003-11-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 ALS 8.3.1
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 87.73 100 0.076 16.1 6.4 140898 38.06
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) 1 2 2.05 100 0.612 2 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 1EUM 2 87.73 133805 7069 99.9 0.18 0.178 0.1902 0.218 0.225 RANDOM 23.15
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] -0.69 -0.34 -0.69 1.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.38 r_dihedral_angle_4_deg 16.852 r_dihedral_angle_3_deg 14.941 r_scangle_it 7.741 r_scbond_it 5.979 r_dihedral_angle_1_deg 4.814 r_mcangle_it 3.042 r_mcbond_it 2.42 r_angle_refined_deg 1.288 r_angle_other_deg 0.803
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.38 r_dihedral_angle_4_deg 16.852 r_dihedral_angle_3_deg 14.941 r_scangle_it 7.741 r_scbond_it 5.979 r_dihedral_angle_1_deg 4.814 r_mcangle_it 3.042 r_mcbond_it 2.42 r_angle_refined_deg 1.288 r_angle_other_deg 0.803 r_mcbond_other 0.548 r_symmetry_vdw_other 0.224 r_nbd_refined 0.213 r_nbtor_refined 0.187 r_symmetry_vdw_refined 0.187 r_symmetry_hbond_refined 0.182 r_nbd_other 0.167 r_xyhbond_nbd_refined 0.156 r_nbtor_other 0.085 r_chiral_restr 0.078 r_xyhbond_nbd_other 0.07 r_bond_refined_d 0.014 r_metal_ion_refined 0.01 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_metal_ion_other 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 10902 Nucleic Acid Atoms Solvent Atoms 651 Heterogen Atoms 132
Software Software Software Name Purpose REFMAC refinement SCALA data scaling CNS refinement MOLREP phasing MOSFLM data reduction CCP4 data scaling CNS phasing