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Horse Heart Myoglobin, Nitrite Adduct, Co-crystallized
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1NPF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.4 295 Ammonium Sulfate, Tris-HCl, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 1.8 30.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.223 α = 90 b = 28.592 β = 106.03 c = 62.841 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 IMAGE PLATE RIGAKU RAXIS IV++ mirrors 2006-01-09 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 1.45 21.84 98.5 0.047 15.7 19587 16051 2 2
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) 1.45 1.5 98.5 0.247
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 1NPF 1.6 19.96 15333 15204 846 99.16 0.14905 0.14905 0.14579 0.1422 0.20644 0.2064 RANDOM 16.345
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] -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.316 r_dihedral_angle_4_deg 21.999 r_dihedral_angle_3_deg 12.919 r_sphericity_free 8.573 r_scangle_it 6.447 r_sphericity_bonded 5.11 r_scbond_it 4.825 r_dihedral_angle_1_deg 4.497 r_mcangle_it 3.748 r_rigid_bond_restr 2.947
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.316 r_dihedral_angle_4_deg 21.999 r_dihedral_angle_3_deg 12.919 r_sphericity_free 8.573 r_scangle_it 6.447 r_sphericity_bonded 5.11 r_scbond_it 4.825 r_dihedral_angle_1_deg 4.497 r_mcangle_it 3.748 r_rigid_bond_restr 2.947 r_mcbond_it 2.773 r_angle_refined_deg 1.135 r_nbtor_refined 0.303 r_nbd_refined 0.211 r_symmetry_vdw_refined 0.17 r_symmetry_hbond_refined 0.142 r_xyhbond_nbd_refined 0.134 r_chiral_restr 0.08 r_bond_refined_d 0.01 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1194 Nucleic Acid Atoms Solvent Atoms 186 Heterogen Atoms 56
Software Software Software Name Purpose REFMAC refinement CrystalClear data reduction d*TREK data scaling MOLREP phasing