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Crystallographic Analysis of the Interaction of Nitric Oxide with Quaternary-T Human Deoxyhemoglobin, Deoxyhemoglobin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HBB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 pH 7.0
Crystal Properties Matthews coefficient Solvent content 2.56 51.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97 α = 90 b = 99.3 β = 90 c = 66 γ = 90
Symmetry Space Group P 21 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 298 AREA DETECTOR SDMS 1990-05-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.5418
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 1.91 95.3 0.04 23.2 3.9 47999
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) 1.91 2.05 78.1 0.105 2.9 2.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (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 1HBB 1.91 10 43149 43149 4832 94.11 0.16727 0.1761 0.19838 0.21 RANDOM 23.779
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] -0.43 1.59 -1.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.789 r_scangle_it 5.074 r_dihedral_angle_1_deg 3.831 r_scbond_it 3.159 r_mcangle_it 2.064 r_angle_refined_deg 1.86 r_mcbond_it 1.072 r_angle_other_deg 0.824 r_symmetry_vdw_other 0.328 r_nbd_refined 0.236
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.789 r_scangle_it 5.074 r_dihedral_angle_1_deg 3.831 r_scbond_it 3.159 r_mcangle_it 2.064 r_angle_refined_deg 1.86 r_mcbond_it 1.072 r_angle_other_deg 0.824 r_symmetry_vdw_other 0.328 r_nbd_refined 0.236 r_symmetry_vdw_refined 0.232 r_nbd_other 0.186 r_xyhbond_nbd_refined 0.18 r_symmetry_hbond_refined 0.147 r_chiral_restr 0.114 r_xyhbond_nbd_other 0.091 r_bond_refined_d 0.019 r_gen_planes_refined 0.009 r_gen_planes_other 0.007 r_bond_other_d 0.001 r_dihedral_angle_2_deg r_dihedral_angle_4_deg r_nbtor_refined r_nbtor_other r_metal_ion_refined r_metal_ion_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 4384 Nucleic Acid Atoms Solvent Atoms 175 Heterogen Atoms 172
Software Software Software Name Purpose REFMAC refinement SDMS data reduction SDMS data scaling X-PLOR phasing