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Scapharca tetrameric hemoglobin, unliganded
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4HRR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 SMALL TUBES 5.8 298 1.9-2.2 Na/K Phosphate, pH 5.8, SMALL TUBES, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.32 46.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 94.353 α = 90 b = 100.958 β = 90 c = 127.165 γ = 90
Symmetry Space Group P 2 2 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 QUANTUM 315 2009-10-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C 0.979 APS 14-BM-C
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 1.45 50 92.2 0.067 0.067 13.9 3.5 197685 197685
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 4HRR 1.46 30.32 187067 9800 92.93 0.13525 0.13316 0.1308 0.17492 0.1727 RANDOM 15.204
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] 0.01 -0.09 0.08
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 36.496 r_dihedral_angle_2_deg 29.708 r_dihedral_angle_4_deg 20.733 r_sphericity_bonded 14.022 r_dihedral_angle_3_deg 10.955 r_dihedral_angle_1_deg 4.236 r_angle_refined_deg 1.283 r_rigid_bond_restr 1.242 r_chiral_restr 0.135 r_gen_planes_refined 0.011
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 36.496 r_dihedral_angle_2_deg 29.708 r_dihedral_angle_4_deg 20.733 r_sphericity_bonded 14.022 r_dihedral_angle_3_deg 10.955 r_dihedral_angle_1_deg 4.236 r_angle_refined_deg 1.283 r_rigid_bond_restr 1.242 r_chiral_restr 0.135 r_gen_planes_refined 0.011 r_bond_refined_d 0.009 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_it r_mcbond_other r_mcangle_it r_scbond_it r_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9108 Nucleic Acid Atoms Solvent Atoms 1945 Heterogen Atoms 349
Software Software Software Name Purpose ADSC data collection AMoRE phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling