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Sperm Whale met-Myoglobin (room temperature; high pressure)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1VXH PDB ENTRY 1VXH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 batch 6 298 ammonium sulfate, pH 6, batch, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.91 35.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.09 α = 90 b = 30.8 β = 105.69 c = 34.57 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 295 AREA DETECTOR UCSD MARK II 1997-12-05 M SINGLE WAVELENGTH 2 1 x-ray 295 AREA DETECTOR UCSD MARK II 1998-04-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.541 2 ROTATING ANODE RIGAKU 1.541
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 1,2 2.3 9.2 90.1 0.057 12.1 2.9 5327 5327 18.6
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) 2.3 2.42 79.6 0.138 6 2.4 671
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT PDB ENTRY 1VXH 2.3 9.14 2 5306 560 90.7 0.165 0.1599 0.236 0.2269 RANDOM 15.1
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] -5.46 -0.85 2.09 3.36
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 16.5 c_scangle_it 3.36 c_scbond_it 2.23 c_mcangle_it 2.1 c_mcbond_it 1.32 c_improper_angle_d 1.02 c_angle_deg 1 c_bond_d 0.006 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 16.5 c_scangle_it 3.36 c_scbond_it 2.23 c_mcangle_it 2.1 c_mcbond_it 1.32 c_improper_angle_d 1.02 c_angle_deg 1 c_bond_d 0.006 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1212 Nucleic Acid Atoms Solvent Atoms 66 Heterogen Atoms 58
Software Software Software Name Purpose CNS refinement CCP4 data scaling CNS phasing