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Horse heart myoglobin mutant (D44K/D60K/E85K) with Zn-deuteroporphyrin IX
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4NS2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 0.1 M Tris/HCl, 3.2 M ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 2.14 42.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.66 α = 90 b = 30.35 β = 98.42 c = 56.94 γ = 90
Symmetry Space Group P 1 21 1
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) 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 1.08 21.9 96.1 0.09 0.101 9.98 5 59805 -3 12.916
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 1.08 1.11 74.3 0.572 0.668 2.22
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 4NS2 1.08 21.9 59797 2948 96.09 0.164 0.1629 0.171 0.1854 0.1973 RANDOM 14.916
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] -0.57 -0.12 0.63 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.511 r_sphericity_free 19.588 r_dihedral_angle_3_deg 13.117 r_sphericity_bonded 10.435 r_dihedral_angle_4_deg 9.545 r_dihedral_angle_1_deg 4.384 r_mcangle_it 2.248 r_rigid_bond_restr 2.064 r_mcbond_other 1.629 r_mcbond_it 1.627
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.511 r_sphericity_free 19.588 r_dihedral_angle_3_deg 13.117 r_sphericity_bonded 10.435 r_dihedral_angle_4_deg 9.545 r_dihedral_angle_1_deg 4.384 r_mcangle_it 2.248 r_rigid_bond_restr 2.064 r_mcbond_other 1.629 r_mcbond_it 1.627 r_angle_refined_deg 1.241 r_angle_other_deg 0.759 r_chiral_restr 0.084 r_bond_refined_d 0.006 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1201 Nucleic Acid Atoms Solvent Atoms 120 Heterogen Atoms 98
Software Software Software Name Purpose XDS data scaling XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction PHASER phasing