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Ferrous nitrosyl blackfin tuna myoglobin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MYT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 293 0.2 M potassium/sodium tartrate, 0.1 M sodium citrate, 2.0 M ammonium sulfate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.1 41.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.52 α = 90 b = 51.53 β = 105.86 c = 38.06 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 ADSC QUANTUM 315 2006-04-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C 0.900 APS 14-BM-C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 0.95 22 98.7 0.089 12 9.87 79652
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1MYT 0.95 21.81 77151 75608 4006 98.74 0.15673 0.15673 0.15558 0.1608 0.17805 0.1823 RANDOM 9.015
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] 0.05 0.03 0.14 -0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.987 r_dihedral_angle_3_deg 12.107 r_dihedral_angle_4_deg 9.033 r_sphericity_free 8.979 r_sphericity_bonded 5.351 r_dihedral_angle_1_deg 5.09 r_scangle_it 4.06 r_scbond_it 3.167 r_mcangle_it 2.053 r_mcbond_it 1.74
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.987 r_dihedral_angle_3_deg 12.107 r_dihedral_angle_4_deg 9.033 r_sphericity_free 8.979 r_sphericity_bonded 5.351 r_dihedral_angle_1_deg 5.09 r_scangle_it 4.06 r_scbond_it 3.167 r_mcangle_it 2.053 r_mcbond_it 1.74 r_angle_refined_deg 1.728 r_rigid_bond_restr 1.535 r_angle_other_deg 1.242 r_mcbond_other 0.885 r_metal_ion_refined 0.262 r_nbd_refined 0.255 r_symmetry_hbond_refined 0.244 r_xyhbond_nbd_refined 0.228 r_nbd_other 0.188 r_symmetry_vdw_other 0.188 r_nbtor_refined 0.184 r_symmetry_vdw_refined 0.179 r_nbtor_other 0.095 r_chiral_restr 0.091 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1231 Nucleic Acid Atoms Solvent Atoms 253 Heterogen Atoms 55
Software Software Software Name Purpose REFMAC refinement ADSC data collection d*TREK data reduction d*TREK data scaling PHASER phasing