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CRYSTAL STRUCTURE OF A PUTATIVE ACETYLACETONE DIOXYGENASE (MPE_A3659) FROM METHYLIBIUM PETROLEIPHILUM PM1 AT 1.50 A RESOLUTION
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP, NANODROP 4.5 277 20.0% PEG-1000, 0.2M Zn(OAc)2, 0.1M Acetate pH 4.5, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.03 39.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.02 α = 90 b = 62.02 β = 90 c = 133.8 γ = 90
Symmetry Space Group P 41 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 1m long Rh coated bent cylindrical mirror forhorizontal and vertical focussing 2006-11-11 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD MARMOSAIC 300 mm CCD Adjustable focusing mirrors in K-B geometry 2006-10-20 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL1-5 SSRL BL1-5 2 SYNCHROTRON APS BEAMLINE 23-ID-D 0.97942, 0.97921, 0.94645 APS 23-ID-D
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 1.5 29.437 99.7 0.094 9.49 42659 16.91
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 1.5 1.55 97.7 0.732 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 1.5 29.437 42575 2177 99.76 0.183 0.181 0.1884 0.21 0.216 RANDOM 16.549
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] 0.28 0.28 -0.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.395 r_dihedral_angle_4_deg 14.698 r_dihedral_angle_3_deg 12.429 r_dihedral_angle_1_deg 7 r_scangle_it 5.221 r_scbond_it 4.311 r_mcangle_it 2.784 r_mcbond_it 2.194 r_angle_refined_deg 1.706 r_angle_other_deg 0.935
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.395 r_dihedral_angle_4_deg 14.698 r_dihedral_angle_3_deg 12.429 r_dihedral_angle_1_deg 7 r_scangle_it 5.221 r_scbond_it 4.311 r_mcangle_it 2.784 r_mcbond_it 2.194 r_angle_refined_deg 1.706 r_angle_other_deg 0.935 r_mcbond_other 0.628 r_symmetry_vdw_other 0.248 r_nbd_refined 0.233 r_xyhbond_nbd_refined 0.229 r_metal_ion_refined 0.215 r_symmetry_hbond_refined 0.215 r_nbd_other 0.202 r_nbtor_refined 0.189 r_symmetry_vdw_refined 0.162 r_chiral_restr 0.106 r_nbtor_other 0.091 r_bond_refined_d 0.017 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2170 Nucleic Acid Atoms Solvent Atoms 202 Heterogen Atoms 58
Software Software Software Name Purpose MolProbity model building SHELX phasing REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHELXD phasing autoSHARP phasing