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Carbonmonoxy Sperm Whale Myoglobin at 140 K: Laser on [600 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 34.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.377 α = 90 b = 30.571 β = 105.68 c = 63.825 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 2008-02-21 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 75.8 0.056 7.8 3.1 30123 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.21 1.25 15.8 1.2 622
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 17.02 29031 1445 73.98 0.171 0.168 0.1672 0.24 0.2404 RANDOM 17.245
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 0.03 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.753 r_dihedral_angle_4_deg 20.532 r_sphericity_free 15.302 r_dihedral_angle_3_deg 14.979 r_scangle_it 9.562 r_sphericity_bonded 8.317 r_scbond_it 6.984 r_dihedral_angle_1_deg 5.904 r_mcangle_it 5.115 r_rigid_bond_restr 4.648
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.753 r_dihedral_angle_4_deg 20.532 r_sphericity_free 15.302 r_dihedral_angle_3_deg 14.979 r_scangle_it 9.562 r_sphericity_bonded 8.317 r_scbond_it 6.984 r_dihedral_angle_1_deg 5.904 r_mcangle_it 5.115 r_rigid_bond_restr 4.648 r_mcbond_it 3.924 r_angle_refined_deg 3.247 r_metal_ion_refined 0.382 r_nbtor_refined 0.337 r_nbd_refined 0.319 r_chiral_restr 0.24 r_symmetry_vdw_refined 0.166 r_xyhbond_nbd_refined 0.165 r_symmetry_hbond_refined 0.164 r_bond_refined_d 0.041 r_gen_planes_refined 0.021
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1217 Nucleic Acid Atoms Solvent Atoms 135 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