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Crystal structure of bluefin tuna hemoglobin deoxy form at pH5.0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 BATCH METHOD 5 293 PEG 2000, sodium phosphate, magnesium chloride, pH 5.0, BATCH METHOD, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.19 43.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.979 α = 90 b = 60.537 β = 95.12 c = 80.64 γ = 90
Symmetry Space Group P 1 21 1
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 4 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL40B2 1.0000 SPring-8 BL40B2
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 1.6 20 88.4 0.073 9.8 63648
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) 1.6 1.66 72.7 0.331
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.6 19.73 60051 3197 100 0.20587 0.20351 0.2503 RANDOM 14.755
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 -0.81 -0.78 -0.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.545 r_scangle_it 4.185 r_scbond_it 2.781 r_angle_refined_deg 1.748 r_mcangle_it 1.608 r_mcbond_it 0.958 r_nbd_refined 0.209 r_symmetry_vdw_refined 0.159 r_symmetry_hbond_refined 0.159 r_xyhbond_nbd_refined 0.144
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.545 r_scangle_it 4.185 r_scbond_it 2.781 r_angle_refined_deg 1.748 r_mcangle_it 1.608 r_mcbond_it 0.958 r_nbd_refined 0.209 r_symmetry_vdw_refined 0.159 r_symmetry_hbond_refined 0.159 r_xyhbond_nbd_refined 0.144 r_chiral_restr 0.116 r_bond_refined_d 0.018 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4462 Nucleic Acid Atoms Solvent Atoms 282 Heterogen Atoms 172
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing