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T-To-T(High) quaternary transitions in human hemoglobin: betaN108A deoxy low-salt (1 test set)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Y0T PDB ENTRY 1Y0T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 batch 7 298 10% PEG 6000, 10 mM potassium phosphate, 100 mM potassium chloride, 3 mM sodium dithionite, 10 mg/ml Hb, pH 7.0, batch, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.56 52.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.3 α = 90 b = 99.3 β = 90 c = 65.9 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 GRAPHITE 1996-12-30 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 96.4 0.061 11.3 5.6 43442
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 84.6 0.19 2.1 2.9 7525
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 PDB ENTRY 1Y0T 1.98 10 2 42594 41056 3063 96.4 0.176 0.1662 0.233 0.2081 MATCHED TO PDB ENTRY 1Y0T 23.55
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]
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 31.9 p_staggered_tor 20.7 p_scangle_it 6.629 p_scbond_it 5.069 p_mcangle_it 2.937 p_mcbond_it 2.155 p_planar_tor 2.1 p_multtor_nbd 0.169 p_xyhbond_nbd 0.167 p_singtor_nbd 0.163
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 31.9 p_staggered_tor 20.7 p_scangle_it 6.629 p_scbond_it 5.069 p_mcangle_it 2.937 p_mcbond_it 2.155 p_planar_tor 2.1 p_multtor_nbd 0.169 p_xyhbond_nbd 0.167 p_singtor_nbd 0.163 p_hb_or_metal_coord 0.133 p_chiral_restr 0.131 p_planar_d 0.038 p_angle_d 0.024 p_bond_d 0.01 p_plane_restr 0.01 p_angle_deg p_xhyhbond_nbd p_orthonormal_tor p_special_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4380 Nucleic Acid Atoms Solvent Atoms 194 Heterogen Atoms 172
Software Software Software Name Purpose SDMS data collection SDMS data reduction X-PLOR model building PROLSQ refinement SDMS data scaling X-PLOR phasing