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Carbonmonoxy Sperm Whale Myoglobin at 100 K: Laser off
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 34.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.319 α = 90 b = 30.604 β = 105.39 c = 63.618 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 100 CCD MAR CCD 165 mm 2008-02-19 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 95.2 0.047 11.7 3.6 37156 -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 73.2 0.366 2.6 2822
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 14.97 37141 1868 95.16 0.156 0.153 0.1526 0.205 0.2047 RANDOM 15.421
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] 0.01 -0.03 -0.01 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.219 r_dihedral_angle_3_deg 12.896 r_dihedral_angle_4_deg 10.847 r_sphericity_free 10.495 r_sphericity_bonded 6.2 r_scangle_it 6.041 r_dihedral_angle_1_deg 5.159 r_scbond_it 4.58 r_mcangle_it 3.294 r_rigid_bond_restr 2.965
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.219 r_dihedral_angle_3_deg 12.896 r_dihedral_angle_4_deg 10.847 r_sphericity_free 10.495 r_sphericity_bonded 6.2 r_scangle_it 6.041 r_dihedral_angle_1_deg 5.159 r_scbond_it 4.58 r_mcangle_it 3.294 r_rigid_bond_restr 2.965 r_mcbond_it 2.353 r_angle_refined_deg 1.962 r_metal_ion_refined 0.653 r_nbtor_refined 0.319 r_nbd_refined 0.306 r_symmetry_vdw_refined 0.197 r_symmetry_hbond_refined 0.182 r_chiral_restr 0.145 r_xyhbond_nbd_refined 0.119 r_bond_refined_d 0.023 r_gen_planes_refined 0.013
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1217 Nucleic Acid Atoms Solvent Atoms 168 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