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Heterodimeric myoglobin formed by domain swapping
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WLA PDB ENTRY 1WLA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 277 25% (w/v) PEG 1000, 100mM MES-NaOH buffer, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.39 48.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.702 α = 90 b = 72.168 β = 90 c = 161.52 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 CCD ADSC QUANTUM 315 2014-07-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL38B1 1.0 SPring-8 BL38B1
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 20 100 0.073 27 7.5 49418 45097 -3
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 2 2.03 100 0.63 2.9 6.1 2198
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 1WLA 2 20 39225 2004 91.33 0.22795 0.22595 0.2315 0.26616 0.2721 RANDOM 33.483
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] 0.48 0.23 -0.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.697 r_dihedral_angle_3_deg 15.554 r_dihedral_angle_4_deg 14.291 r_long_range_B_refined 5.857 r_long_range_B_other 5.756 r_dihedral_angle_1_deg 4.277 r_scangle_other 1.562 r_angle_refined_deg 1.507 r_angle_other_deg 1.364 r_mcangle_it 1.223
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.697 r_dihedral_angle_3_deg 15.554 r_dihedral_angle_4_deg 14.291 r_long_range_B_refined 5.857 r_long_range_B_other 5.756 r_dihedral_angle_1_deg 4.277 r_scangle_other 1.562 r_angle_refined_deg 1.507 r_angle_other_deg 1.364 r_mcangle_it 1.223 r_mcangle_other 1.223 r_scbond_it 0.973 r_scbond_other 0.968 r_mcbond_it 0.738 r_mcbond_other 0.737 r_chiral_restr 0.122 r_bond_refined_d 0.012 r_gen_planes_refined 0.01 r_gen_planes_other 0.008 r_bond_other_d 0.007 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4796 Nucleic Acid Atoms Solvent Atoms 355 Heterogen Atoms 172
Software Software Software Name Purpose HKL-2000 data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling