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Crystal Structure of Trichoplusia ni secreted ferritin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MFR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 277 20 mM Tris, 150 mM NaCl, 0.05% sodium azide, pH 8, spontaneous in storage buffer, temperature 277K, pH 8.00
Crystal Properties Matthews coefficient Solvent content 2.84 56.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 206.88 α = 90 b = 145.697 β = 94.93 c = 209.158 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 123 CCD ADSC QUANTUM 4 2004-04-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 ALS 8.2.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.91 29.85 97 0.065 11.7 1.89 463420 18.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.9 1.97 98.7 0.344 2.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 1MFR 1.91 19.98 479863 463278 23175 96.5 0.189 0.189 0.1889 0.194 0.1901 THIN SHELL METHOD 28.9
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] 5.03 -1.97 -0.51 -4.52
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 9.32 c_scbond_it 6.34 c_mcangle_it 4.24 c_mcbond_it 3.03 c_angle_deg 1.3 c_bond_d 0.009 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 9.32 c_scbond_it 6.34 c_mcangle_it 4.24 c_mcbond_it 3.03 c_angle_deg 1.3 c_bond_d 0.009 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3225 Nucleic Acid Atoms Solvent Atoms 375 Heterogen Atoms 4
Software Software Software Name Purpose CNS refinement SCALEPACK data scaling PDB_EXTRACT data extraction DENZO data reduction AMoRE phasing