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Scapharca tetrameric hemoglobin, CO-state
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SCT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 SMALL TUBES 5.8 298 1.9-2.2M Na/K Phosphate, pH 5.8, SMALL TUBES, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.22 44.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.537 α = 90 b = 99.884 β = 90 c = 125.242 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 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 1.24 50 98.9 0.059 0.059 29.5 6.2 321447 321447
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 1SCT 1.25 11.79 271903 14225 89.81 0.13921 0.13738 0.1373 0.17421 0.174 RANDOM 16.296
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] 0.06 -0.03 -0.04
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 37.14 r_dihedral_angle_2_deg 33.162 r_dihedral_angle_4_deg 18.248 r_dihedral_angle_3_deg 12.017 r_sphericity_bonded 11.493 r_dihedral_angle_1_deg 4.378 r_rigid_bond_restr 2.893 r_angle_refined_deg 1.416 r_angle_other_deg 0.805 r_chiral_restr 0.073
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 37.14 r_dihedral_angle_2_deg 33.162 r_dihedral_angle_4_deg 18.248 r_dihedral_angle_3_deg 12.017 r_sphericity_bonded 11.493 r_dihedral_angle_1_deg 4.378 r_rigid_bond_restr 2.893 r_angle_refined_deg 1.416 r_angle_other_deg 0.805 r_chiral_restr 0.073 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_gen_planes_other 0.005 r_bond_other_d 0.001 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 9138 Nucleic Acid Atoms Solvent Atoms 1984 Heterogen Atoms 360
Software Software Software Name Purpose ADSC data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling REFMAC phasing