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Crystal structure of a sugar isomerase (SMc04130) from SINORHIZOBIUM MELILOTI 1021 at 1.45 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 50.0% PEG-200, 0.1M HEPES pH 7.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.22 61.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.796 α = 90 b = 70.796 β = 90 c = 264.721 γ = 120
Symmetry Space Group P 61 2 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 325 mm CCD FLAT COLLIMATING MIRROR, TOROID FOCUSING MIRROR 2010-03-12 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91837,0.97929,0.97915 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.45 29.865 100 0.075 0.075 11.2 5.8 70842 70842 16.06
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.45 1.49 99.8 0.692 0.692 2.3 5.8 5109
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 1.45 29.865 70726 3571 99.94 0.1607 0.1594 0.1682 0.1846 0.1961 RANDOM 24.3082
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] 2.09 1.04 2.09 -3.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.143 r_dihedral_angle_4_deg 17.581 r_dihedral_angle_3_deg 11.886 r_sphericity_free 10.728 r_sphericity_bonded 6.336 r_dihedral_angle_1_deg 6.332 r_scangle_it 4.701 r_scbond_it 3.189 r_mcangle_it 2.223 r_angle_refined_deg 1.835
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.143 r_dihedral_angle_4_deg 17.581 r_dihedral_angle_3_deg 11.886 r_sphericity_free 10.728 r_sphericity_bonded 6.336 r_dihedral_angle_1_deg 6.332 r_scangle_it 4.701 r_scbond_it 3.189 r_mcangle_it 2.223 r_angle_refined_deg 1.835 r_rigid_bond_restr 1.68 r_mcbond_it 1.538 r_mcbond_other 0.981 r_angle_other_deg 0.952 r_chiral_restr 0.091 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2041 Nucleic Acid Atoms Solvent Atoms 267 Heterogen Atoms 101
Software Software Software Name Purpose SHELX phasing REFMAC refinement SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction SHELXD phasing autoSHARP phasing