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The Crystal Structure of a Short-chain Dehydrogenase from Streptomyces avermitilis to 2A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 289 30% PEG 8000, 0.1M Bis Tris pH 6.5, 0.2M Sodium acetate, 2% DMSO, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.48 50.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 136.638 α = 90 b = 202.779 β = 90 c = 106.339 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 ADSC QUANTUM 315 2009-12-17 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID APS 19-ID
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 50 98.6 0.083 7.2 4.5 195448
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) 2 2.07 96.5 0.574 4.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 THROUGHOUT 2 49.55 185534 9845 98.5 0.2 0.197 0.1982 0.242 0.2419 RANDOM 34.97
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] 0.09 -0.23 0.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.896 r_dihedral_angle_4_deg 17.402 r_dihedral_angle_3_deg 16.014 r_dihedral_angle_1_deg 5.212 r_scangle_it 2.235 r_scbond_it 1.476 r_angle_refined_deg 1.27 r_mcangle_it 0.787 r_mcbond_it 0.467 r_chiral_restr 0.086
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.896 r_dihedral_angle_4_deg 17.402 r_dihedral_angle_3_deg 16.014 r_dihedral_angle_1_deg 5.212 r_scangle_it 2.235 r_scbond_it 1.476 r_angle_refined_deg 1.27 r_mcangle_it 0.787 r_mcbond_it 0.467 r_chiral_restr 0.086 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 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 19913 Nucleic Acid Atoms Solvent Atoms 980 Heterogen Atoms 12
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-3000 data reduction HKL-3000 data scaling SHELX phasing DM phasing BUCCANEER phasing Coot model building