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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 57.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 188.76 α = 90 b = 151.492 β = 107.46 c = 133.939 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 2005-01-12 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 3.1 50 97.5 0.154 0.154 4.5 3 65374
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 3.1 3.21 97.7 0.329 0.329 2.2 2.7
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 3.1 20 63071 3222 97.15 0.273 0.27 0.2697 0.332 0.2659 RANDOM 37.195
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] -4 -0.62 1.34 2.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.595 r_dihedral_angle_3_deg 17.841 r_dihedral_angle_4_deg 13.221 r_dihedral_angle_1_deg 5.155 r_rigid_bond_restr 4.385 r_scbond_it 3.532 r_scangle_it 1.266 r_mcangle_it 1.244 r_angle_refined_deg 1.158 r_sphericity_free 0.813
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.595 r_dihedral_angle_3_deg 17.841 r_dihedral_angle_4_deg 13.221 r_dihedral_angle_1_deg 5.155 r_rigid_bond_restr 4.385 r_scbond_it 3.532 r_scangle_it 1.266 r_mcangle_it 1.244 r_angle_refined_deg 1.158 r_sphericity_free 0.813 r_sphericity_bonded 0.762 r_mcbond_it 0.706 r_nbtor_refined 0.306 r_nbd_refined 0.202 r_symmetry_hbond_refined 0.161 r_symmetry_vdw_refined 0.138 r_xyhbond_nbd_refined 0.134 r_chiral_restr 0.071 r_bond_refined_d 0.007 r_gen_planes_refined 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 21460 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 528
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection CrystalClear data reduction CrystalClear data scaling CNS phasing