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Crystal structure of human ferrochelatase mutant with Phe 337 replaced by Ala
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HRK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 6.5 291 MICROBATCH UNDER OIL (70:30 PARAFFIN/SILICONE OIL MIXTURE) METHO USING 2 microliter DROPS CONTAINING EQUAL VOLUMES OF PROTEIN SOLUTION (64 MG/ML IN 50 MM TRIS MOPS, 0.1M KCL, 1% NA-CHOLATE, 250 MM IMIDAZOLE, PH 8.1) AND PRECIPITANT SOLUTION (0.2 M SODIUM ACETAT TRI HYDRATE, 0.1 M SODIUM CACODYLATE, PH 6.5 IN 30%W/V POLYETHYL GLYCOL 8000 (HAMPTON CRYSTAL SCREEN I-28, HAMPTON RESEARCH), pH 6.50, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.81 56.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.686 α = 90 b = 94.052 β = 90 c = 113.276 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 MARMOSAIC 225 mm CCD ROSENBAUM 2005-11-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-BM 1.00 APS 22-BM
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 50 90.1 0.057 25.23 17.5 58933
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 2.07 98.2 0.242 3.39 10
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 (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION DIFFERENCE FOURIER THROUGHOUT 1HRK 2.35 43.44 36722 36722 1944 96.36 0.19473 0.19473 0.19168 0.25332 RANDOM 25.034
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] -0.02 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.657 r_dihedral_angle_4_deg 18.854 r_dihedral_angle_3_deg 16.35 r_dihedral_angle_1_deg 11.82 r_scangle_it 3.383 r_scbond_it 2.26 r_angle_refined_deg 1.82 r_mcangle_it 1.392 r_mcbond_it 0.865 r_nbtor_refined 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.657 r_dihedral_angle_4_deg 18.854 r_dihedral_angle_3_deg 16.35 r_dihedral_angle_1_deg 11.82 r_scangle_it 3.383 r_scbond_it 2.26 r_angle_refined_deg 1.82 r_mcangle_it 1.392 r_mcbond_it 0.865 r_nbtor_refined 0.31 r_nbd_refined 0.223 r_xyhbond_nbd_refined 0.194 r_symmetry_vdw_refined 0.19 r_chiral_restr 0.108 r_symmetry_hbond_refined 0.093 r_bond_refined_d 0.016 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5642 Nucleic Acid Atoms Solvent Atoms 342 Heterogen Atoms 182
Software Software Software Name Purpose SERGUI data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling