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Crystal structure of Scapharca inaequivalvis HBI, M37V mutant in the absence of ligand
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4SDH 4SDH (DEOXY WILD TYPE HBI)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 SMALL TUBES 8.5 298 PHOSPHATE BUFFER, pH 8.50, SMALL TUBES, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.31 46.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.74 α = 90 b = 44.51 β = 90 c = 144.05 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 IMAGE PLATE RIGAKU RAXIS IIC YALE MIRRORS 2000-05-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.1 40 90.9 0.089 9.3 2.9 17677 16213 1 12.5
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) 2.1 2.18 86.7 0.311 1503
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 4SDH (DEOXY WILD TYPE HBI) 2.1 30.75 17677 16104 782 91.1 0.204 0.184 0.184 0.1779 0.229 0.2231 RANDOM 20.7
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] -1.58 -3.75 5.32
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 17.3 c_scangle_it 6.39 c_scbond_it 5.05 c_mcangle_it 3.48 c_mcbond_it 2.89 c_improper_angle_d 1.12 c_angle_deg 1.1 c_bond_d 0.005 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 17.3 c_scangle_it 6.39 c_scbond_it 5.05 c_mcangle_it 3.48 c_mcbond_it 2.89 c_improper_angle_d 1.12 c_angle_deg 1.1 c_bond_d 0.005 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 2230 Nucleic Acid Atoms Solvent Atoms 113 Heterogen Atoms 86
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling CNS refinement CNS phasing