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Structure of Greyhound Hemoglobin: Origin of High Oxygen Affinity
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1G0B PDB ENTRY 1G0B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 298 1.7 M AmSO4, 100 mM glycine pH 9.0, 0.6 M 3-(1-pyridino)-1-propane sulfonate [NDSB-201] and 21% glycerol, VAPOR DIFFUSION, SITTING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 3.2 61.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.973 α = 90 b = 88.045 β = 103.37 c = 53.073 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 113 IMAGE PLATE RIGAKU OSMIC MIRRORS 2009-09-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU
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 1.9 33.5 99.6 0.037 23.7 3.7 29475 2
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 1.9 1.97 99.6 0.1 9.4 3.2
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 PDB ENTRY 1G0B 1.9 33.5 29475 1565 99.6 0.19 0.188 0.186 0.232 0.2271 RANDOM 18.65
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] 0.58 0.34 -0.05 -0.37
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.221 r_dihedral_angle_4_deg 12.822 r_dihedral_angle_3_deg 10.768 r_dihedral_angle_1_deg 4.452 r_scangle_it 1.381 r_angle_refined_deg 0.873 r_scbond_it 0.815 r_mcangle_it 0.544 r_mcbond_it 0.276 r_chiral_restr 0.066
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.221 r_dihedral_angle_4_deg 12.822 r_dihedral_angle_3_deg 10.768 r_dihedral_angle_1_deg 4.452 r_scangle_it 1.381 r_angle_refined_deg 0.873 r_scbond_it 0.815 r_mcangle_it 0.544 r_mcbond_it 0.276 r_chiral_restr 0.066 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 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_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2208 Nucleic Acid Atoms Solvent Atoms 447 Heterogen Atoms 86
Software Software Software Name Purpose CrystalClear data collection AMoRE phasing REFMAC refinement CrystalClear data reduction CrystalClear data scaling