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Crystal Structure Determination of Methemoglobin from Pigeon at 2 Angstrom Resolution (Columba livia)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FAW PDB ENTRY 1FAW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 293 30% PEG 3350, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.61 52.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.659 α = 78.78 b = 65.322 β = 89.9 c = 103.733 γ = 65.3
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 293 IMAGE PLATE MARRESEARCH 2008-05-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R 1.54179
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2 30 6.83 1.75 79185
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.07 1.71
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 PDB ENTRY 1FAW 2 19.99 71134 7956 91.95 0.24663 0.24334 0.24 0.27597 0.271 RANDOM 30.187
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 35.794 r_dihedral_angle_4_deg 15.56 r_dihedral_angle_3_deg 13.413 r_dihedral_angle_1_deg 5.877 r_angle_refined_deg 0.933 r_scangle_it 0.83 r_mcangle_it 0.591 r_scbond_it 0.52 r_mcbond_it 0.396 r_nbtor_refined 0.289
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.794 r_dihedral_angle_4_deg 15.56 r_dihedral_angle_3_deg 13.413 r_dihedral_angle_1_deg 5.877 r_angle_refined_deg 0.933 r_scangle_it 0.83 r_mcangle_it 0.591 r_scbond_it 0.52 r_mcbond_it 0.396 r_nbtor_refined 0.289 r_symmetry_vdw_refined 0.215 r_nbd_refined 0.179 r_xyhbond_nbd_refined 0.105 r_symmetry_hbond_refined 0.104 r_chiral_restr 0.065 r_metal_ion_refined 0.04 r_bond_refined_d 0.006 r_gen_planes_refined 0.002 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8828 Nucleic Acid Atoms Solvent Atoms 215 Heterogen Atoms 344
Software Software Software Name Purpose REFMAC refinement MAR345 data collection AUTOMAR data reduction SCALEPACK data scaling PHASER phasing