☰ Navigation Tabs
Crystal structure of Aspergillus fumigatus N-myristoyl transferase in complex with myristoyl CoA and a methylpyridyl-dipihenyl-pyridine ligand
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4CAX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 25%PEG3350,0.2M NACL
Crystal Properties Matthews coefficient Solvent content 2.52 51.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.035 α = 90 b = 58.403 β = 90 c = 152.635 γ = 90
Symmetry Space Group P 21 21 21
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 4r 2009-02-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.933 ESRF ID14-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 1.8 42.4 99 0.051 0.997 12.9 2.8 42412 13.5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.84 96.2 0.262 0.852 3.4 2.8
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 4CAX 1.8 42.4 40240 2144 98.45 0.21043 0.20892 0.2118 0.23821 0.2445 RANDOM 18.201
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] -0.74 -0.12 0.86
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.59 r_dihedral_angle_4_deg 15.97 r_dihedral_angle_3_deg 13.306 r_dihedral_angle_1_deg 5.892 r_long_range_B_refined 4.802 r_long_range_B_other 4.66 r_scangle_other 3.524 r_scbond_it 2.543 r_scbond_other 2.542 r_mcangle_it 2.433
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.59 r_dihedral_angle_4_deg 15.97 r_dihedral_angle_3_deg 13.306 r_dihedral_angle_1_deg 5.892 r_long_range_B_refined 4.802 r_long_range_B_other 4.66 r_scangle_other 3.524 r_scbond_it 2.543 r_scbond_other 2.542 r_mcangle_it 2.433 r_mcangle_other 2.433 r_angle_other_deg 1.814 r_mcbond_it 1.805 r_mcbond_other 1.804 r_angle_refined_deg 1.187 r_chiral_restr 0.067 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_gen_planes_other 0.004 r_bond_other_d 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3185 Nucleic Acid Atoms Solvent Atoms 437 Heterogen Atoms 90
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing