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Crystallographic Structure of HbII-oxy from Lucina pectinata at pH 8.0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 Capillary Counterdiffusion 8 293 Sodium Formate, pH 8.0, Capillary Counterdiffusion, temperature 293.0K
Crystal Properties Matthews coefficient Solvent content 3.13 60.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.706 α = 90 b = 74.706 β = 90 c = 152.646 γ = 90
Symmetry Space Group P 42 21 2
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 QUANTUM 4r 2008-11-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM16 0.90750 ESRF BM16
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.85 20 98.4 0.069 0.069 25.911 8.5 37050 37050 -3 28.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 1.92 100 0.491 0.491 4.347 8.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.85 20 37050 37050 1864 98.35 0.185 0.1835 0.1854 0.2139 0.2163 RANDOM 31.6376
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] 1.07 1.07 -2.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.282 r_dihedral_angle_4_deg 26.198 r_dihedral_angle_3_deg 15.178 r_scangle_it 5.49 r_dihedral_angle_1_deg 5.361 r_scbond_it 4.063 r_mcangle_it 2.46 r_angle_refined_deg 2.205 r_angle_other_deg 2.044 r_mcbond_it 1.539
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.282 r_dihedral_angle_4_deg 26.198 r_dihedral_angle_3_deg 15.178 r_scangle_it 5.49 r_dihedral_angle_1_deg 5.361 r_scbond_it 4.063 r_mcangle_it 2.46 r_angle_refined_deg 2.205 r_angle_other_deg 2.044 r_mcbond_it 1.539 r_mcbond_other 0.18 r_chiral_restr 0.174 r_bond_refined_d 0.029 r_gen_planes_refined 0.014 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2356 Nucleic Acid Atoms Solvent Atoms 268 Heterogen Atoms 93
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection