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Carbonmonoxy Sperm Whale Myoglobin at 120 K: Laser off
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MBC PDB ENTRY 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 1.9 35.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.536 α = 90 b = 30.847 β = 105.65 c = 63.897 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 120 CCD MAR CCD 165 mm 2007-05-26 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 83.5 0.039 9.5 3.2 33220 -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 40.4 0.494 2 1604
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 1MBC 1.22 20.06 33209 1671 85.65 0.156 0.153 0.1507 0.207 0.2036 RANDOM 15.2
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] -0.04 -0.04 0.11 -0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.656 r_dihedral_angle_4_deg 16.414 r_dihedral_angle_3_deg 13.834 r_sphericity_free 10.897 r_scangle_it 6.234 r_sphericity_bonded 6.02 r_dihedral_angle_1_deg 4.924 r_scbond_it 4.877 r_rigid_bond_restr 3.34 r_mcangle_it 3.286
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.656 r_dihedral_angle_4_deg 16.414 r_dihedral_angle_3_deg 13.834 r_sphericity_free 10.897 r_scangle_it 6.234 r_sphericity_bonded 6.02 r_dihedral_angle_1_deg 4.924 r_scbond_it 4.877 r_rigid_bond_restr 3.34 r_mcangle_it 3.286 r_mcbond_it 2.492 r_angle_refined_deg 2.179 r_metal_ion_refined 0.617 r_nbtor_refined 0.313 r_nbd_refined 0.306 r_chiral_restr 0.173 r_symmetry_vdw_refined 0.138 r_symmetry_hbond_refined 0.137 r_xyhbond_nbd_refined 0.112 r_bond_refined_d 0.027 r_gen_planes_refined 0.014
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1217 Nucleic Acid Atoms Solvent Atoms 162 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