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Crystal structure of eonyl-(acyl-carrier-protein) reductase from anaplasma phagocytophilum in complex with nad at 1.9a resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3K2E native structure, pdb entry 3k2e
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 290 JCSG+ SCREEN CONDITION E11: 100MM IMIDAZOLE PH 80, 10% PEG 8000; ANPHA.00817.A AT 23MG/ML WITH 1MM NAD, PH 8.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K
Crystal Properties Matthews coefficient Solvent content 2.25 45.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.78 α = 90 b = 89.73 β = 90 c = 79.11 γ = 90
Symmetry Space Group P 21 21 2
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 RAYONIX MX-225 2009-09-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.97351 CLSI 08ID-1
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 1.8 50 99.8 0.068 20.74 7.2 53969 53869 -3 27.36
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 1.8 1.85 99.9 0.491 5.6 3924
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 native structure, pdb entry 3k2e 1.8 19.78 53869 53867 2709 99.9 0.15 0.15 0.148 0.1573 0.175 0.1822 RANDOM 16.54
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] 0.37 0.24 -0.61
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.356 r_dihedral_angle_4_deg 14.964 r_dihedral_angle_3_deg 11.911 r_dihedral_angle_1_deg 5.474 r_scangle_it 4.593 r_scbond_it 2.776 r_mcangle_it 1.771 r_angle_refined_deg 1.523 r_angle_other_deg 1.003 r_mcbond_it 0.969
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.356 r_dihedral_angle_4_deg 14.964 r_dihedral_angle_3_deg 11.911 r_dihedral_angle_1_deg 5.474 r_scangle_it 4.593 r_scbond_it 2.776 r_mcangle_it 1.771 r_angle_refined_deg 1.523 r_angle_other_deg 1.003 r_mcbond_it 0.969 r_mcbond_other 0.273 r_chiral_restr 0.092 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3825 Nucleic Acid Atoms Solvent Atoms 364 Heterogen Atoms 47
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling