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CRYSTAL STRUCTURE OF LEISHMANIA MAJOR N-MYRISTOYLTRANSFERASE (NMT) WITH BOUND MYRISTOYL-COA AND A BENZOMORPHOLINONE LIGAND
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3H5Z PDB ENTRY 3H5Z
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 25.9%PEG1500,0.2M NACL, 0.1M CACODYLATE, PH 5.6
Crystal Properties Matthews coefficient Solvent content 2.21 44.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.024 α = 90 b = 90.165 β = 113.78 c = 52.966 γ = 90
Symmetry Space Group P 1 21 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 IMAGE PLATE 2011-03-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007
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 20 92.3 0.06 22 2.1 25800 28
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.03 85.6 0.36 2.7 1.9
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 PDB ENTRY 3H5Z 2 19.75 24432 1319 92.04 0.17693 0.17368 0.1763 0.23516 0.2349 RANDOM 30.722
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] 0.12 0.04 -0.07 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.622 r_dihedral_angle_4_deg 19.772 r_dihedral_angle_3_deg 16.039 r_dihedral_angle_1_deg 6.932 r_scangle_it 4.552 r_scbond_it 3.075 r_angle_refined_deg 1.976 r_mcangle_it 1.952 r_mcbond_it 1.155 r_chiral_restr 0.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.622 r_dihedral_angle_4_deg 19.772 r_dihedral_angle_3_deg 16.039 r_dihedral_angle_1_deg 6.932 r_scangle_it 4.552 r_scbond_it 3.075 r_angle_refined_deg 1.976 r_mcangle_it 1.952 r_mcbond_it 1.155 r_chiral_restr 0.15 r_bond_refined_d 0.023 r_gen_planes_refined 0.01 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3344 Nucleic Acid Atoms Solvent Atoms 185 Heterogen Atoms 92
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing