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Carbonmonoxy Sperm Whale Myoglobin at 120 K: Laser on [600 min]
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 1.89 34.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.453 α = 90 b = 30.718 β = 105.59 c = 63.907 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 2007-05-27 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 97.2 0.053 11.1 3.6 38508 -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 75.4 0.392 2.4 2948
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 1.21 20.01 38494 1940 97.69 0.146 0.144 0.143 0.186 0.1846 RANDOM 15.013
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 0.01 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.379 r_dihedral_angle_4_deg 18.923 r_dihedral_angle_3_deg 14.248 r_sphericity_free 10.422 r_scangle_it 6.311 r_sphericity_bonded 5.834 r_dihedral_angle_1_deg 4.847 r_scbond_it 4.83 r_rigid_bond_restr 3.438 r_mcangle_it 3.211
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.379 r_dihedral_angle_4_deg 18.923 r_dihedral_angle_3_deg 14.248 r_sphericity_free 10.422 r_scangle_it 6.311 r_sphericity_bonded 5.834 r_dihedral_angle_1_deg 4.847 r_scbond_it 4.83 r_rigid_bond_restr 3.438 r_mcangle_it 3.211 r_mcbond_it 2.219 r_angle_refined_deg 1.908 r_metal_ion_refined 0.519 r_nbtor_refined 0.319 r_nbd_refined 0.303 r_symmetry_vdw_refined 0.166 r_chiral_restr 0.145 r_xyhbond_nbd_refined 0.116 r_symmetry_hbond_refined 0.105 r_bond_refined_d 0.02 r_gen_planes_refined 0.013
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1217 Nucleic Acid Atoms Solvent Atoms 161 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