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Carbonmonoxy Sperm Whale Myoglobin at 120 K: Laser on [300 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 34.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.439 α = 90 b = 30.724 β = 105.55 c = 63.876 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 97.9 0.051 12.4 3.6 38802 -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 83.1 0.313 2.9 3255
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 16.58 38782 1952 98.46 0.143 0.141 0.1395 0.179 0.176 RANDOM 14.779
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 0.01 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.368 r_dihedral_angle_4_deg 17.678 r_dihedral_angle_3_deg 13.781 r_sphericity_free 9.843 r_scangle_it 5.79 r_sphericity_bonded 5.518 r_dihedral_angle_1_deg 4.905 r_scbond_it 4.198 r_mcangle_it 2.982 r_rigid_bond_restr 2.526
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.368 r_dihedral_angle_4_deg 17.678 r_dihedral_angle_3_deg 13.781 r_sphericity_free 9.843 r_scangle_it 5.79 r_sphericity_bonded 5.518 r_dihedral_angle_1_deg 4.905 r_scbond_it 4.198 r_mcangle_it 2.982 r_rigid_bond_restr 2.526 r_mcbond_it 2.072 r_angle_refined_deg 1.867 r_metal_ion_refined 0.555 r_nbtor_refined 0.318 r_nbd_refined 0.309 r_symmetry_hbond_refined 0.157 r_chiral_restr 0.143 r_symmetry_vdw_refined 0.143 r_xyhbond_nbd_refined 0.106 r_bond_refined_d 0.019 r_gen_planes_refined 0.012
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1217 Nucleic Acid Atoms Solvent Atoms 167 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