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Carbonmonoxy Sperm Whale Myoglobin at 100 K: Laser on [300 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 34.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.333 α = 90 b = 30.631 β = 105.35 c = 63.693 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 90.7 0.05 10.8 3.6 35795 -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 45.9 0.427 2.3 1788
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 16.76 35778 1787 91.18 0.156 0.154 0.1531 0.209 0.2092 RANDOM 15.725
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] 0.03 -0.01 -0.02 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.653 r_dihedral_angle_3_deg 13.402 r_sphericity_free 11.038 r_dihedral_angle_4_deg 10.512 r_scangle_it 6.622 r_sphericity_bonded 6.233 r_dihedral_angle_1_deg 5.342 r_scbond_it 5.005 r_mcangle_it 3.475 r_rigid_bond_restr 3.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.653 r_dihedral_angle_3_deg 13.402 r_sphericity_free 11.038 r_dihedral_angle_4_deg 10.512 r_scangle_it 6.622 r_sphericity_bonded 6.233 r_dihedral_angle_1_deg 5.342 r_scbond_it 5.005 r_mcangle_it 3.475 r_rigid_bond_restr 3.4 r_mcbond_it 2.495 r_angle_refined_deg 2.113 r_metal_ion_refined 0.373 r_nbtor_refined 0.321 r_nbd_refined 0.303 r_symmetry_vdw_refined 0.18 r_symmetry_hbond_refined 0.172 r_chiral_restr 0.153 r_xyhbond_nbd_refined 0.136 r_bond_refined_d 0.024 r_gen_planes_refined 0.013
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1217 Nucleic Acid Atoms Solvent Atoms 166 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