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Structure of A-type Ketoreductases from Modular Polyketide Synthase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Z5L PDB ENTRY 2Z5L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.75 293 3.1 M ammonium sulfate, 200 mM NaCl, 100 mM sodium cacodylate, pH 6.75, VAPOR DIFFUSION, SITTING DROP, temperature 293K 2 7 293 2.5 M DL-malic acid, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.474 α = 72.79 b = 63.746 β = 67.3 c = 71.551 γ = 89.82
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 315r 2009-06-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 ALS 8.3.1
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 1.48 62.55 95.2 0.066 26.7 2 148637 2 20.3
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) 1.48 1.51 92.2 0.478 2 2
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 PDB ENTRY 2Z5L 1.48 62.55 62203 148637 7468 95.2 0.215 0.213 0.211 0.243 0.2404 RANDOM 23.36
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] 0.32 0.3 0.19 -0.16 -0.65 0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.73 r_dihedral_angle_4_deg 21.888 r_dihedral_angle_3_deg 15.837 r_dihedral_angle_1_deg 6.027 r_scangle_it 5.677 r_scbond_it 3.853 r_mcangle_it 2.58 r_angle_refined_deg 2.551 r_mcbond_it 1.635 r_chiral_restr 0.186
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.73 r_dihedral_angle_4_deg 21.888 r_dihedral_angle_3_deg 15.837 r_dihedral_angle_1_deg 6.027 r_scangle_it 5.677 r_scbond_it 3.853 r_mcangle_it 2.58 r_angle_refined_deg 2.551 r_mcbond_it 1.635 r_chiral_restr 0.186 r_bond_refined_d 0.031 r_gen_planes_refined 0.015 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6852 Nucleic Acid Atoms Solvent Atoms 512 Heterogen Atoms 6
Software Software Software Name Purpose ADSC data collection PHASES phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling