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Carbonmonoxy Sperm Whale Myoglobin at 140 K: Laser on [150 min]
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MBC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 batch 6 293 2.4M Ammonium sulfate, 10mM TrisHCl, 100mM Sodium phosphate, pH 6.0, batch, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.87 34.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.353 α = 90 b = 30.621 β = 105.85 c = 63.805 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 140 CCD MAR CCD 165 mm 2008-02-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW14A 0.827 Photon Factory AR-NW14A
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 1.21 50 89.2 0.051 8.8 3.3 35374 -3
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) 1.21 1.25 39.3 0.521 1.5 1545
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 1MBC 1.21 17.01 35346 1759 90.45 0.167 0.165 0.1637 0.219 0.2188 RANDOM 16.713
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] -0.02 0.04 -0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.908 r_dihedral_angle_4_deg 23.126 r_dihedral_angle_3_deg 15.044 r_sphericity_free 13.686 r_scangle_it 7.713 r_sphericity_bonded 7.527 r_dihedral_angle_1_deg 6.097 r_scbond_it 6.022 r_mcangle_it 4.468 r_rigid_bond_restr 3.843
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.908 r_dihedral_angle_4_deg 23.126 r_dihedral_angle_3_deg 15.044 r_sphericity_free 13.686 r_scangle_it 7.713 r_sphericity_bonded 7.527 r_dihedral_angle_1_deg 6.097 r_scbond_it 6.022 r_mcangle_it 4.468 r_rigid_bond_restr 3.843 r_mcbond_it 3.553 r_angle_refined_deg 2.982 r_metal_ion_refined 0.486 r_nbtor_refined 0.33 r_nbd_refined 0.309 r_symmetry_vdw_refined 0.256 r_chiral_restr 0.223 r_symmetry_hbond_refined 0.195 r_xyhbond_nbd_refined 0.123 r_bond_refined_d 0.034 r_gen_planes_refined 0.019
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1217 Nucleic Acid Atoms Solvent Atoms 152 Heterogen Atoms 55
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling