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T-To-T(High) quaternary transitions in human hemoglobin: betaD99A deoxy low-salt (10 test sets)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Y0W PDB ENTRY 1Y0W
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 2.59 52.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.46 α = 90 b = 99.88 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 277 IMAGE PLATE RIGAKU RAXIS IV OSMIC MIRRORS 2004-05-05 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 2.2 50 80.3 0.069 9.2 5.4 26819
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) 2.2 2.38 35.1 0.222 3.1 2.3 2292
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 and local R-free PDB ENTRY 1Y0W 2.2 10 22469 2498 75.64 0.16783 0.16122 0.1718 0.22655 0.2271 10 SETS MATCHED to PDB ENTRY 1Y0W 29
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 2.53 -2.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 19.082 r_scangle_it 4.422 r_dihedral_angle_1_deg 4.076 r_scbond_it 2.712 r_angle_refined_deg 2.056 r_mcangle_it 1.745 r_angle_other_deg 1.271 r_mcbond_it 0.936 r_xyhbond_nbd_other 0.27 r_nbd_refined 0.264
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 19.082 r_scangle_it 4.422 r_dihedral_angle_1_deg 4.076 r_scbond_it 2.712 r_angle_refined_deg 2.056 r_mcangle_it 1.745 r_angle_other_deg 1.271 r_mcbond_it 0.936 r_xyhbond_nbd_other 0.27 r_nbd_refined 0.264 r_xyhbond_nbd_refined 0.242 r_symmetry_hbond_refined 0.242 r_nbd_other 0.216 r_symmetry_vdw_other 0.214 r_symmetry_vdw_refined 0.199 r_chiral_restr 0.114 r_bond_refined_d 0.023 r_gen_planes_refined 0.008 r_gen_planes_other 0.007 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4380 Nucleic Acid Atoms Solvent Atoms 175 Heterogen Atoms 172
Software Software Software Name Purpose CRYSTAL data collection MOSFLM data reduction SCALA data scaling X-PLOR model building REFMAC refinement CrystalClear data reduction CCP4 data scaling X-PLOR phasing