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Study on structure and function relationships in human ferric Pirin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1J1L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 289 PEG 20000, 0.1 MES
, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.37 48.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.305 α = 90 b = 67.031 β = 90 c = 107.058 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 300 mm CCD 2012-07-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 0.80 APS 22-ID
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 1.8 21.88 94.3 0.149 32.93 9.6 27328 25931
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.84 67.6
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 1J1L 1.8 21.87 27328 25931 1397 94.3 0.1896 0.1871 0.1955 0.2337 0.2379 RANDOM 21.715
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] -13.46 12.56 0.9
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.097 r_dihedral_angle_4_deg 21.617 r_dihedral_angle_3_deg 14.356 r_dihedral_angle_1_deg 6.863 r_angle_refined_deg 2.265 r_angle_other_deg 0.999 r_chiral_restr 0.157 r_bond_refined_d 0.022 r_gen_planes_refined 0.012 r_bond_other_d 0.006
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.097 r_dihedral_angle_4_deg 21.617 r_dihedral_angle_3_deg 14.356 r_dihedral_angle_1_deg 6.863 r_angle_refined_deg 2.265 r_angle_other_deg 0.999 r_chiral_restr 0.157 r_bond_refined_d 0.022 r_gen_planes_refined 0.012 r_bond_other_d 0.006 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2250 Nucleic Acid Atoms Solvent Atoms 165 Heterogen Atoms 1
Software Software Software Name Purpose SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing