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Crystal structure of a putative polyketide cyclase (tm1040_3560) from silicibacter sp. tm1040 at 2.00 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.6 277 0.0200M CaCl2, 30.0000% MPD, 0.1M Acetate pH 4.6, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.87 57.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.31 α = 90 b = 63.31 β = 90 c = 196.09 γ = 90
Symmetry Space Group P 43 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 MARMOSAIC 300 mm CCD Adjustable focusing mirrors in K-B geometry 2008-10-11 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 0.97967,0.94645 APS 23-ID-B
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 29.501 99.4 0.169 7.58 28101 -3 23.871
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 2.07 95.9 0.01 1.9
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 MAD THROUGHOUT 2 29.501 28016 1408 99.77 0.169 0.167 0.178 0.213 0.2204 RANDOM 44.739
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] 0.73 0.73 -1.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.722 r_dihedral_angle_4_deg 17.279 r_dihedral_angle_3_deg 10.753 r_scangle_it 6.105 r_scbond_it 4.331 r_dihedral_angle_1_deg 3.965 r_mcangle_it 2.462 r_angle_refined_deg 1.679 r_angle_other_deg 1.582 r_mcbond_it 1.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.722 r_dihedral_angle_4_deg 17.279 r_dihedral_angle_3_deg 10.753 r_scangle_it 6.105 r_scbond_it 4.331 r_dihedral_angle_1_deg 3.965 r_mcangle_it 2.462 r_angle_refined_deg 1.679 r_angle_other_deg 1.582 r_mcbond_it 1.35 r_mcbond_other 0.288 r_chiral_restr 0.092 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d 0.003 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2136 Nucleic Acid Atoms Solvent Atoms 270 Heterogen Atoms 65
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