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The crystal structure of nonsymbiotic corn hemoglobin 1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1D8U pdb entry 1D8U
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 277 0.1M Sodium Acetate, 0.2M Ammonium Sulfate, 20% PEG MME 1900, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.45 49.76
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.754 α = 90 b = 89.734 β = 90 c = 157.424 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV Osmic 2004-01-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.54
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 80 99.6 0.05 19.3 6.67 35371 38.8
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 2.26 97.6 0.24 6.4 5.24 2504
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 1D8U 2.2 79.06 35371 1873 99.63 0.203 0.201 0.2041 0.253 0.2509 RANDOM 38.837
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] 1.3 1.19 -2.49
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 5.221 r_dihedral_angle_1_deg 4.64 r_scbond_it 3.254 r_mcangle_it 2.49 r_angle_refined_deg 1.779 r_mcbond_it 1.369 r_angle_other_deg 1.052 r_symmetry_vdw_other 0.282 r_symmetry_hbond_refined 0.271 r_nbd_other 0.253
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 5.221 r_dihedral_angle_1_deg 4.64 r_scbond_it 3.254 r_mcangle_it 2.49 r_angle_refined_deg 1.779 r_mcbond_it 1.369 r_angle_other_deg 1.052 r_symmetry_vdw_other 0.282 r_symmetry_hbond_refined 0.271 r_nbd_other 0.253 r_xyhbond_nbd_refined 0.239 r_nbd_refined 0.232 r_symmetry_vdw_refined 0.21 r_chiral_restr 0.111 r_nbtor_other 0.094 r_bond_refined_d 0.026 r_gen_planes_other 0.013 r_gen_planes_refined 0.012 r_bond_other_d 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4579 Nucleic Acid Atoms Solvent Atoms 592 Heterogen Atoms 197
Software Software Software Name Purpose d*TREK data scaling AMoRE phasing REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection d*TREK data reduction