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Carbonmonoxy Sperm Whale Myoglobin at 100 K: Laser on [150 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 34.31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.329 α = 90 b = 30.625 β = 105.36 c = 63.664 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 2008-02-20 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 93.2 0.046 11.2 3.6 36736 -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 59 0.399 2.4 2291
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 17.17 36721 1844 93.59 0.156 0.153 0.1528 0.211 0.2103 RANDOM 15.506
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 -0.02 -0.01 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.17 r_dihedral_angle_4_deg 13.698 r_dihedral_angle_3_deg 13.113 r_sphericity_free 10.505 r_scangle_it 6.236 r_sphericity_bonded 6.156 r_dihedral_angle_1_deg 5.218 r_scbond_it 4.673 r_mcangle_it 3.378 r_rigid_bond_restr 3.032
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.17 r_dihedral_angle_4_deg 13.698 r_dihedral_angle_3_deg 13.113 r_sphericity_free 10.505 r_scangle_it 6.236 r_sphericity_bonded 6.156 r_dihedral_angle_1_deg 5.218 r_scbond_it 4.673 r_mcangle_it 3.378 r_rigid_bond_restr 3.032 r_mcbond_it 2.456 r_angle_refined_deg 2.063 r_nbtor_refined 0.322 r_nbd_refined 0.301 r_symmetry_vdw_refined 0.193 r_metal_ion_refined 0.182 r_symmetry_hbond_refined 0.17 r_chiral_restr 0.14 r_xyhbond_nbd_refined 0.131 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 170 Heterogen Atoms 55
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling