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Crystal Structures of Unliganded and Half-Liganded Human Hemoglobin Derivatives Cross-Linked between Lys 82beta1 and Lys 82beta2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BIJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 SMALL TUBES 6.6 293 PEG6000, pH 6.60, SMALL TUBES, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.57 52.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.137 α = 90 b = 96.338 β = 101.79 c = 102.476 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MAR CCD 165 mm MIRRORS 2003-04-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44B2 SPring-8 BL44B2
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 1.5 29 95.6 0.048 16.5 3.7 182747
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) 1.5 1.55 74.3 0.176
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1BIJ 1.5 29.11 684867 182747 9559 100 0.17349 0.17184 0.20531 RANDOM 16.196
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] 0.03 -0.2 -0.1 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 4.94 r_scangle_it 3.236 r_scbond_it 2.148 r_angle_refined_deg 1.562 r_mcangle_it 1.194 r_mcbond_it 0.637 r_symmetry_vdw_refined 0.209 r_nbd_refined 0.193 r_xyhbond_nbd_refined 0.125 r_symmetry_hbond_refined 0.108
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 4.94 r_scangle_it 3.236 r_scbond_it 2.148 r_angle_refined_deg 1.562 r_mcangle_it 1.194 r_mcbond_it 0.637 r_symmetry_vdw_refined 0.209 r_nbd_refined 0.193 r_xyhbond_nbd_refined 0.125 r_symmetry_hbond_refined 0.108 r_chiral_restr 0.089 r_bond_refined_d 0.017 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8759 Nucleic Acid Atoms Solvent Atoms 1870 Heterogen Atoms 356
Software Software Software Name Purpose HKL-2000 data collection SCALEPACK data scaling AMoRE phasing REFMAC refinement HKL-2000 data reduction