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Crystal structures of Saccharomyces cerevisiae N-myristoyltransferase with bound myristoyl-CoA and inhibitors
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.1 277 2.6M ammonium salphate, 20mM HEPES, pH 7.1, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.88 57.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 188.847 α = 90 b = 151.301 β = 107.64 c = 134.195 γ = 90
Symmetry Space Group C 1 2 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 IMAGE PLATE RIGAKU RAXIS IV 2005-01-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 3 50 97.7 0.181 0.181 4.1 4 70196
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3 3.1 94.2 0.364 0.21 2.1 3.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 3 20 69954 3550 97.6 0.263 0.26 0.2624 0.318 0.2621 RANDOM 33.362
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] -2.33 0.31 0.81 1.7
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.892 r_dihedral_angle_3_deg 18.654 r_dihedral_angle_4_deg 14.299 r_dihedral_angle_1_deg 5.474 r_mcangle_it 1.441 r_angle_refined_deg 1.078 r_scangle_it 1.06 r_mcbond_it 0.838 r_rigid_bond_restr 0.751 r_scbond_it 0.727
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.892 r_dihedral_angle_3_deg 18.654 r_dihedral_angle_4_deg 14.299 r_dihedral_angle_1_deg 5.474 r_mcangle_it 1.441 r_angle_refined_deg 1.078 r_scangle_it 1.06 r_mcbond_it 0.838 r_rigid_bond_restr 0.751 r_scbond_it 0.727 r_nbtor_refined 0.307 r_sphericity_bonded 0.259 r_nbd_refined 0.206 r_symmetry_vdw_refined 0.175 r_symmetry_hbond_refined 0.158 r_xyhbond_nbd_refined 0.138 r_chiral_restr 0.075 r_bond_refined_d 0.006 r_gen_planes_refined 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 21420 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 428
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection CrystalClear data reduction CrystalClear data scaling CNS phasing