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Horse heart myoglobin mutant (K45E/K63E/K96E) with Zn-deuteroporphyrin IX
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3RJ6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 0.1 M Tris/HCl, 2.8 M ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 1.81 32.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 28.53 α = 90 b = 34.97 β = 90 c = 123.45 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 MARMOSAIC 300 mm CCD 2014-06-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 0.97872 APS 21-ID-D
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 1.06 28.53 96.9 0.064 0.07 0.027 0.999 16.98 6.6 55463 -3 10.221
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.06 1.09 72.2 0.536 0.614 2.38
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 3RJ6 1.06 28.53 55397 2690 96.9 0.1488 0.1479 0.1574 0.1654 0.1736 RANDOM 8.686
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] -0.08 -0.1 0.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.238 r_sphericity_free 19.252 r_dihedral_angle_4_deg 15.458 r_dihedral_angle_3_deg 12.089 r_sphericity_bonded 6.352 r_dihedral_angle_1_deg 4.519 r_rigid_bond_restr 2.656 r_mcangle_it 1.39 r_angle_refined_deg 1.179 r_mcbond_it 0.95
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.238 r_sphericity_free 19.252 r_dihedral_angle_4_deg 15.458 r_dihedral_angle_3_deg 12.089 r_sphericity_bonded 6.352 r_dihedral_angle_1_deg 4.519 r_rigid_bond_restr 2.656 r_mcangle_it 1.39 r_angle_refined_deg 1.179 r_mcbond_it 0.95 r_mcbond_other 0.949 r_angle_other_deg 0.784 r_chiral_restr 0.09 r_bond_refined_d 0.006 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1199 Nucleic Acid Atoms Solvent Atoms 144 Heterogen Atoms 78
Software Software Software Name Purpose XDS data scaling XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction PHASER phasing