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Ferric Horse Heart Myoglobin; H64V Mutant, Nitrite Modified
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3HC9 PDB entry 3HC9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.4 295 ammonium phosphate, EDTA, crystal soaking with sodium nitrite, pH 6.4, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 3.06 59.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 30.389 α = 90 b = 119.39 β = 90 c = 57.155 γ = 90
Symmetry Space Group P 21 21 2
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 mirrors 2009-03-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R 1.5418
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 1.95 23.15 100 0.125 7.1 6.99 15767 2 2 39.1
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) 1.95 2.02 100 0.503 2.8 7.07 1544
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 3HC9 1.95 23.2 2 2 15767 14980 787 99.94 0.218 0.20045 0.19782 0.25007 0.2541 RANDOM 26.571
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] 0.71 0.46 -1.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.019 r_dihedral_angle_3_deg 16.951 r_dihedral_angle_4_deg 12.889 r_dihedral_angle_1_deg 5.753 r_scangle_it 5.387 r_scbond_it 3.757 r_mcangle_it 2.239 r_angle_refined_deg 2.095 r_mcbond_it 1.481 r_nbtor_refined 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.019 r_dihedral_angle_3_deg 16.951 r_dihedral_angle_4_deg 12.889 r_dihedral_angle_1_deg 5.753 r_scangle_it 5.387 r_scbond_it 3.757 r_mcangle_it 2.239 r_angle_refined_deg 2.095 r_mcbond_it 1.481 r_nbtor_refined 0.3 r_nbd_refined 0.221 r_xyhbond_nbd_refined 0.187 r_symmetry_vdw_refined 0.181 r_chiral_restr 0.143 r_symmetry_hbond_refined 0.142 r_bond_refined_d 0.028 r_gen_planes_refined 0.011
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1196 Nucleic Acid Atoms Solvent Atoms 122 Heterogen Atoms 49
Software Software Software Name Purpose CrystalClear data collection PHASER phasing REFMAC refinement d*TREK data reduction d*TREK data scaling