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T-To-T(High) quaternary transitions in human hemoglobin: alphaR92A oxy (2mM IHP, 20% PEG) (10 test sets)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1XZ7 PDB ENTRY 1XZ7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 10% PEG 6000, 10 MM POTASSIUM PHOSPHATE, 100 MM POTASSIUM CHLORIDE, 3 MM SODIUM DITHIONITE, 10 MG/ML DEOXYHB, PH 7.0, BATCH, TEMPERATURE 298K, 1 ATM N2.
EXPOSING DEOXY CRYSTAL TO LIGAND: A DEOXY CRYSTAL WAS SOAKED (UNDER 1 ATM NITROGEN) IN SUBSTITUTE MOTHER LIQUOR CONTAINING 20% PEG 6000, 10 MM POTASSIUM PHOSPHATE (PH 7.0), 100 MM POTASSIUM CHLORIDE, AND 2.2 MM IHP. THE IHP-STABILIZED CRYSTAL WAS THEN EXPOSED TO 1 ATM OF OXYGEN AT 177K AND DATA WAS COLLECTED AT 169K.
Crystal Properties Matthews coefficient Solvent content 2.54 51.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.4 α = 90 b = 98.5 β = 90 c = 67 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 169 IMAGE PLATE RIGAKU RAXIS IV OSMIC MIRRORS 2001-09-20 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 2.9 43.9 92.9 0.155 3.5 2.6 13441
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) 2.9 3.13 87.6 0.34 2.5 2.5 2570
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 PDB ENTRY 1XZ7 2.9 10 11302 1307 89.17 0.18796 0.17898 0.1883 0.26695 0.2751 MATCHED TO PDB ENTRY 1XZ7 32.819
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] -0.94 -0.98 1.92
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 20.414 r_dihedral_angle_1_deg 3.696 r_scangle_it 2.84 r_angle_refined_deg 1.881 r_scbond_it 1.717 r_mcangle_it 1.513 r_angle_other_deg 1.157 r_mcbond_it 0.795 r_nbd_refined 0.289 r_xyhbond_nbd_refined 0.284
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 20.414 r_dihedral_angle_1_deg 3.696 r_scangle_it 2.84 r_angle_refined_deg 1.881 r_scbond_it 1.717 r_mcangle_it 1.513 r_angle_other_deg 1.157 r_mcbond_it 0.795 r_nbd_refined 0.289 r_xyhbond_nbd_refined 0.284 r_symmetry_hbond_refined 0.264 r_symmetry_vdw_other 0.238 r_nbd_other 0.23 r_symmetry_vdw_refined 0.229 r_xyhbond_nbd_other 0.21 r_chiral_restr 0.089 r_bond_refined_d 0.019 r_gen_planes_refined 0.005 r_gen_planes_other 0.005 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4368 Nucleic Acid Atoms Solvent Atoms 143 Heterogen Atoms 180
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling X-PLOR model building REFMAC refinement CrystalClear data reduction CCP4 data scaling X-PLOR phasing