☰ Navigation Tabs
2.31 Angstrom resolution crystal structure of a holo-(acyl-carrier-protein) synthase from Bacillus anthracis str. Ames in complex with CoA (3',5'-ADP)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3F09
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 295 protein was mixed at 1:1 v/v ratio with PEG3350 25%, 0.2M MgCl2, 0.1M Hepes pH 7.5, 10mM CoA. 5% Glycerol, 5% sucrose, 55 Eth. Gl. in magic sol., paratone were used as cryo protectants. , VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.63 53.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.526 α = 90 b = 77.526 β = 90 c = 122.965 γ = 120
Symmetry Space Group P 32 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 MARMOSAIC 225 mm CCD beryllium lenses 2009-06-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F
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 2.31 34.99 99.9 0.123 20.54 10.2 19381 19381 -3 30.2
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 2.31 2.35 100 0.553 4.9 9.9 969
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 (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 3F09 2.31 34.99 18306 18306 986 99.51 0.19263 0.18962 0.204 0.24654 0.256 RANDOM 16.961
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] -2.56 -1.28 -2.56 3.84
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.039 r_dihedral_angle_4_deg 11.914 r_dihedral_angle_3_deg 11.118 r_scangle_it 4.726 r_scbond_it 3.085 r_dihedral_angle_1_deg 2.704 r_angle_refined_deg 1.744 r_mcangle_it 1.603 r_mcbond_it 0.875 r_angle_other_deg 0.784
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.039 r_dihedral_angle_4_deg 11.914 r_dihedral_angle_3_deg 11.118 r_scangle_it 4.726 r_scbond_it 3.085 r_dihedral_angle_1_deg 2.704 r_angle_refined_deg 1.744 r_mcangle_it 1.603 r_mcbond_it 0.875 r_angle_other_deg 0.784 r_mcbond_other 0.239 r_chiral_restr 0.087 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 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 2693 Nucleic Acid Atoms Solvent Atoms 260 Heterogen Atoms 177
Software Software Software Name Purpose Blu-Ice data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling