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Intersubunit Interactions Associated with Tyr42alpha Stabilize the Quaternary-T Tetramer but are not Major Quaternary Constraints in Deoxyhemoglobin: alphaY42A deoxyhemoglobin no-salt
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1XZ2 pdb entry 1XZ2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 batch 4.6 298 15% PEG 4000, 50 mM sodium acetate, 100 mM ammonium acetate, 3 mM sodium dithionite, 20 mg/ml Hb, pH 4.6, batch, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.43 49.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.1 α = 90 b = 111.9 β = 90 c = 64 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 298 AREA DETECTOR SDMS graphite 1996-09-30 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 1.98 50 96.7 0.065 9.8 6.5 41133 41133
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) 1.98 2.13 84.1 0.242 1.7 2.9 7049
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-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT plus local R-free analysis pdb entry 1XZ2 2 10 41133 36294 3999 97.98 0.18674 0.18274 0.22372 0.1887 10 mutaully exclusive test sets matched to pdb entry 1XZ2 25.021
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] -0.53 1.05 -0.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.282 r_scangle_it 4.836 r_dihedral_angle_1_deg 3.853 r_scbond_it 3.022 r_angle_refined_deg 1.89 r_mcangle_it 1.808 r_angle_other_deg 1.187 r_mcbond_it 0.957 r_symmetry_vdw_other 0.41 r_symmetry_vdw_refined 0.358
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.282 r_scangle_it 4.836 r_dihedral_angle_1_deg 3.853 r_scbond_it 3.022 r_angle_refined_deg 1.89 r_mcangle_it 1.808 r_angle_other_deg 1.187 r_mcbond_it 0.957 r_symmetry_vdw_other 0.41 r_symmetry_vdw_refined 0.358 r_xyhbond_nbd_refined 0.24 r_nbd_refined 0.229 r_symmetry_hbond_refined 0.225 r_nbd_other 0.197 r_xyhbond_nbd_other 0.152 r_chiral_restr 0.103 r_bond_refined_d 0.02 r_gen_planes_refined 0.008 r_gen_planes_other 0.007 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4366 Nucleic Acid Atoms Solvent Atoms 182 Heterogen Atoms 172
Software Software Software Name Purpose REFMAC refinement SDMS data reduction SDMS data scaling X-PLOR phasing