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Higher-dose (260.0 kGy) structure of horse-heart myoglobin at room temperature
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WLA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.4 293 3.5 M ammonium sulphate, 0.1 M Tris-HCl pH 7.4
Crystal Properties Matthews coefficient Solvent content 1.95 37.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 29.187 α = 90 b = 35.782 β = 90 c = 125.114 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 293 PIXEL DECTRIS PILATUS 6M 2024-06-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM07 0.9795 ESRF BM07
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.713 31.284 99.3 0.014 0.178 0.049 0.998 7.9 13 14687
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.713 1.743 99.2 1.991 2.634 0.721 0.699 0.9 13
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.71 34.426 14722 692 99.091 0.172 0.1706 0.185 0.1964 0.2091 28.302
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] 2.366 -0.934 -1.432
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.788 r_dihedral_angle_3_deg 13.929 r_dihedral_angle_2_deg 11.398 r_lrange_it 5.9 r_lrange_other 5.9 r_scangle_it 5.697 r_scangle_other 5.694 r_dihedral_angle_1_deg 4.768 r_scbond_it 3.639 r_scbond_other 3.633
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.788 r_dihedral_angle_3_deg 13.929 r_dihedral_angle_2_deg 11.398 r_lrange_it 5.9 r_lrange_other 5.9 r_scangle_it 5.697 r_scangle_other 5.694 r_dihedral_angle_1_deg 4.768 r_scbond_it 3.639 r_scbond_other 3.633 r_mcangle_other 3.017 r_mcangle_it 3.007 r_mcbond_it 2.216 r_mcbond_other 2.186 r_angle_refined_deg 1.709 r_dihedral_angle_other_2_deg 1.179 r_angle_other_deg 0.597 r_nbd_refined 0.22 r_nbd_other 0.197 r_symmetry_nbd_other 0.181 r_nbtor_refined 0.178 r_symmetry_nbd_refined 0.171 r_xyhbond_nbd_refined 0.112 r_symmetry_xyhbond_nbd_refined 0.097 r_chiral_restr 0.091 r_symmetry_nbtor_other 0.075 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1171 Nucleic Acid Atoms Solvent Atoms 33 Heterogen Atoms 43
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling REFMAC phasing