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Crystal Structure of Cu(II)(Sal-Phe)/apo-Myoglobin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1V9Q
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.8 277 1.3M Sodium, Pottasium Phosphate, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.06 40.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 32.691 α = 90 b = 59.132 β = 90 c = 74.188 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 IMAGE PLATE RIGAKU RAXIS VII 2005-07-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 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 1.65 50 98.8 0.092 40.59 9.4 17781 21.168
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) 1.65 1.71 96.4 0.293
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 1V9Q 1.65 26.7 16850 906 98.83 0.20546 0.2034 0.2026 0.24636 0.2407 RANDOM 20.433
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.4 r_dihedral_angle_4_deg 16.889 r_dihedral_angle_3_deg 14.203 r_sphericity_bonded 7.61 r_dihedral_angle_1_deg 4.543 r_scangle_it 4.289 r_scbond_it 2.684 r_mcangle_it 1.637 r_angle_refined_deg 1.483 r_mcbond_it 0.969
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.4 r_dihedral_angle_4_deg 16.889 r_dihedral_angle_3_deg 14.203 r_sphericity_bonded 7.61 r_dihedral_angle_1_deg 4.543 r_scangle_it 4.289 r_scbond_it 2.684 r_mcangle_it 1.637 r_angle_refined_deg 1.483 r_mcbond_it 0.969 r_nbtor_refined 0.311 r_symmetry_vdw_refined 0.219 r_nbd_refined 0.216 r_symmetry_hbond_refined 0.181 r_xyhbond_nbd_refined 0.135 r_metal_ion_refined 0.102 r_chiral_restr 0.089 r_bond_refined_d 0.013 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1240 Nucleic Acid Atoms Solvent Atoms 136 Heterogen Atoms 46
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing