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Crystal structures of Saccharomyces cerevisiae N-myristoyltransferase with bound myristoyl-CoA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.1 277 2.6M ammonium sulphate, 20mM HEPES, pH 7.1, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.86 56.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 188.222 α = 90 b = 150.87 β = 107.65 c = 134.047 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 CCD ADSC QUANTUM 4 2004-10-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-6A 1.0000 Photon Factory BL-6A
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 2.9 50 98.6 0.105 0.105 11 3.5 78246
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 2.9 3 97.2 0.368 0.368 3.8 3.4
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 2.9 20 77880 3883 98.91 0.25 0.249 0.2452 0.262 0.2867 RANDOM 51.651
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] -3.42 0.81 1 2.91
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.159 r_dihedral_angle_3_deg 18.655 r_dihedral_angle_4_deg 16.649 r_dihedral_angle_1_deg 5.767 r_rigid_bond_restr 2.596 r_scbond_it 2.268 r_scangle_it 2.244 r_mcangle_it 1.28 r_sphericity_bonded 1.162 r_angle_refined_deg 1.125
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.159 r_dihedral_angle_3_deg 18.655 r_dihedral_angle_4_deg 16.649 r_dihedral_angle_1_deg 5.767 r_rigid_bond_restr 2.596 r_scbond_it 2.268 r_scangle_it 2.244 r_mcangle_it 1.28 r_sphericity_bonded 1.162 r_angle_refined_deg 1.125 r_mcbond_it 0.74 r_nbtor_refined 0.31 r_nbd_refined 0.211 r_symmetry_vdw_refined 0.189 r_symmetry_hbond_refined 0.149 r_xyhbond_nbd_refined 0.13 r_chiral_restr 0.082 r_bond_refined_d 0.007 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 21785 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 378
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling CNS phasing