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Structural genomics, ybgI protein, unknown function
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other SeMet structure
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 0.1M cacodylate buffer pH 7.5, 0.1M magnesium acetate, 15% (w/v) polyethylene glycol 8000, 5% (v/v) polyethylene glycol 400, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.44 49.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 156.73 α = 90 b = 156.73 β = 90 c = 57.61 γ = 120
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 MARRESEARCH 2002-07-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 0.9793 APS 22-ID
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 20 0.096 14.1 5 80094 4.1
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 SeMet structure 2.2 19.76 80007 4000 95.9 0.212 0.212 0.2118 0.253 0.2518 RANDOM 13.6
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] 2.19 2.53 2.19 -4.39
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 24.2 c_scangle_it 2.58 c_angle_deg 2.2 c_scbond_it 1.9 c_mcangle_it 1.52 c_improper_angle_d 1.4 c_mcbond_it 1.07 c_bond_d 0.026 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 24.2 c_scangle_it 2.58 c_angle_deg 2.2 c_scbond_it 1.9 c_mcangle_it 1.52 c_improper_angle_d 1.4 c_mcbond_it 1.07 c_bond_d 0.026 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 11382 Nucleic Acid Atoms Solvent Atoms 576 Heterogen Atoms 11
Software Software Software Name Purpose MAR345 data collection d*TREK data reduction CNS refinement d*TREK data scaling CNS phasing