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Structure of Iron dependent superoxide dismutase from P. falciparum.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ISC PDB ENTRY 1ISC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 0.1M TRIS PH 7.5,38% PEG 600
Crystal Properties Matthews coefficient Solvent content 2.2 43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.941 α = 90 b = 78.91 β = 90 c = 90.621 γ = 90
Symmetry Space Group P 21 21 21
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 CCD MIRRORS 2003-07-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 ESRF ID29
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 2.52 25 99.9 0.08 17.3 4.1 13247
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 2.5 2.59 100 0.3 6.2 4.2
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 PDB ENTRY 1ISC 2.52 59.76 13247 697 98.8 0.187 0.183 0.1825 0.263 0.2645 RANDOM 28.14
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] -1.74 1.37 0.37
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.632 r_dihedral_angle_3_deg 18.676 r_dihedral_angle_4_deg 14.211 r_dihedral_angle_1_deg 6.35 r_scangle_it 2.542 r_scbond_it 1.695 r_angle_refined_deg 1.453 r_mcangle_it 1.189 r_mcbond_it 0.689 r_nbtor_refined 0.309
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.632 r_dihedral_angle_3_deg 18.676 r_dihedral_angle_4_deg 14.211 r_dihedral_angle_1_deg 6.35 r_scangle_it 2.542 r_scbond_it 1.695 r_angle_refined_deg 1.453 r_mcangle_it 1.189 r_mcbond_it 0.689 r_nbtor_refined 0.309 r_symmetry_hbond_refined 0.217 r_nbd_refined 0.209 r_symmetry_vdw_refined 0.203 r_xyhbond_nbd_refined 0.147 r_chiral_restr 0.107 r_bond_refined_d 0.014 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_refined 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3202 Nucleic Acid Atoms Solvent Atoms 140 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing