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Crystal Structure of Glycated Human Haemoglobin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HHO PDB ENTRY 1HHO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.7 277 PEG 4000, pH 6.7, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.54 51.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 237.987 α = 90 b = 59.267 β = 125.36 c = 137.024 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 120 CCD 2003-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.95400 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.3 15 92.3 0.034 0.034 23.7 3.2 64184 39
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.3 2.38 71 0.391 0.391 2.5
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 1HHO 2.3 14.9 60718 3020 87.33 0.249 0.244 0.2426 0.331 0.3284 RANDOM 57.868
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] -3.08 -1.95 3.36 -2.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.848 r_dihedral_angle_3_deg 19.165 r_dihedral_angle_4_deg 16.003 r_dihedral_angle_1_deg 6.193 r_scangle_it 2.347 r_angle_refined_deg 1.755 r_scbond_it 1.591 r_mcangle_it 1.115 r_mcbond_it 0.63 r_nbtor_refined 0.293
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.848 r_dihedral_angle_3_deg 19.165 r_dihedral_angle_4_deg 16.003 r_dihedral_angle_1_deg 6.193 r_scangle_it 2.347 r_angle_refined_deg 1.755 r_scbond_it 1.591 r_mcangle_it 1.115 r_mcbond_it 0.63 r_nbtor_refined 0.293 r_symmetry_hbond_refined 0.28 r_symmetry_vdw_refined 0.234 r_nbd_refined 0.22 r_xyhbond_nbd_refined 0.158 r_chiral_restr 0.108 r_bond_refined_d 0.012 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10950 Nucleic Acid Atoms Solvent Atoms 468 Heterogen Atoms 513
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing DM phasing REFMAC refinement PDB_EXTRACT data extraction