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Crystal structure of a putative 4-methylmuconolactone methylisomerase (YP_295714.1) from Ralstonia eutropha JMP134 at 2.00 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP, NANODROP 6 277 0.2M Ca(OAc)2, 20.0% PEG-8000, 0.1M MES, pH 6.0, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.59 52.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.06 α = 90 b = 46.06 β = 90 c = 124.16 γ = 90
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 2006-08-11 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 0.94926, 0.97925, 0.97939 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 25.743 94.7 0.045 10.34 17384 44.084
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 80 0.328 2.5 2702
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 25.743 17337 882 99.29 0.173 0.171 0.179 0.202 0.211 RANDOM 48.388
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 -0.09 0.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 25.788 r_dihedral_angle_4_deg 14.942 r_dihedral_angle_3_deg 11.174 r_scangle_it 6.071 r_scbond_it 4.729 r_dihedral_angle_1_deg 3.378 r_mcangle_it 2.592 r_mcbond_it 2.037 r_angle_refined_deg 1.493 r_angle_other_deg 0.861
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 25.788 r_dihedral_angle_4_deg 14.942 r_dihedral_angle_3_deg 11.174 r_scangle_it 6.071 r_scbond_it 4.729 r_dihedral_angle_1_deg 3.378 r_mcangle_it 2.592 r_mcbond_it 2.037 r_angle_refined_deg 1.493 r_angle_other_deg 0.861 r_mcbond_other 0.409 r_symmetry_vdw_other 0.285 r_nbd_refined 0.209 r_nbd_other 0.198 r_symmetry_vdw_refined 0.193 r_nbtor_refined 0.19 r_xyhbond_nbd_refined 0.147 r_symmetry_hbond_refined 0.147 r_nbtor_other 0.088 r_chiral_restr 0.073 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1638 Nucleic Acid Atoms Solvent Atoms 125 Heterogen Atoms 13
Software Software Software Name Purpose MolProbity model building REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SOLVE phasing RESOLVE phasing