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Crystal structure of a putative delta-5-3-ketosteroid isomerase (eca2236) from pectobacterium atrosepticum scri1043 at 1.55 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 277 20.0000% PEG-6000, 0.1M Citrate pH 5.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.26 45.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.78 α = 79.41 b = 51.6 β = 79.74 c = 66.31 γ = 61.89
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 325 mm CCD Flat collimating mirror, toroid focusing mirror 2008-08-03 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91837,0.97934,0.97922 SSRL BL9-2
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 1.55 28.964 94.6 0.038 9.84 80729 -3 18.68
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 1.55 1.61 90.4 0.427 1.4
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 1.55 25.31 76705 4016 95.82 0.15971 0.15822 0.1709 0.1881 0.1981 RANDOM 15.913
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] -0.29 -0.32 0.14 1.39 0.29 -0.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.176 r_dihedral_angle_4_deg 15.179 r_dihedral_angle_3_deg 10.603 r_scangle_it 5.418 r_dihedral_angle_1_deg 5.208 r_scbond_it 4.056 r_mcangle_it 2.44 r_mcbond_it 1.769 r_angle_refined_deg 1.492 r_angle_other_deg 0.923
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.176 r_dihedral_angle_4_deg 15.179 r_dihedral_angle_3_deg 10.603 r_scangle_it 5.418 r_dihedral_angle_1_deg 5.208 r_scbond_it 4.056 r_mcangle_it 2.44 r_mcbond_it 1.769 r_angle_refined_deg 1.492 r_angle_other_deg 0.923 r_mcbond_other 0.458 r_symmetry_vdw_other 0.256 r_symmetry_vdw_refined 0.234 r_nbd_refined 0.228 r_symmetry_hbond_refined 0.217 r_xyhbond_nbd_refined 0.202 r_nbd_other 0.191 r_nbtor_refined 0.183 r_chiral_restr 0.091 r_nbtor_other 0.091 r_bond_refined_d 0.018 r_gen_planes_refined 0.005 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other 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 4044 Nucleic Acid Atoms Solvent Atoms 789 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHELXD phasing autoSHARP phasing