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Crystal structure of a Putative Xylose isomerase (YP_426450.1) from RHODOSPIRILLUM RUBRUM ATCC 11170 at 1.90 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.1 277 0.2M NH4Acetate, 20.0% PEG-3350, No Buffer pH 7.1, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.14 42.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.188 α = 90 b = 94.903 β = 93.04 c = 173.197 γ = 90
Symmetry Space Group C 1 2 1
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 double crystal monochromator 2009-07-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 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 1.9 29.683 99.8 0.102 0.102 8 2.9 96564 20.08
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) 1.9 1.95 100 0.432 0.432 2.2 2.8 7107
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 SAD THROUGHOUT 1.9 29.683 96562 4830 99.72 0.1519 0.1498 0.1673 0.1916 0.2047 RANDOM 27.6657
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] 0.18 -1.6 -0.92 0.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.518 r_dihedral_angle_4_deg 20.417 r_dihedral_angle_3_deg 12.892 r_dihedral_angle_1_deg 6.244 r_scangle_it 3.388 r_scbond_it 2.312 r_angle_refined_deg 1.468 r_mcangle_it 1.166 r_angle_other_deg 0.932 r_mcbond_it 0.696
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.518 r_dihedral_angle_4_deg 20.417 r_dihedral_angle_3_deg 12.892 r_dihedral_angle_1_deg 6.244 r_scangle_it 3.388 r_scbond_it 2.312 r_angle_refined_deg 1.468 r_mcangle_it 1.166 r_angle_other_deg 0.932 r_mcbond_it 0.696 r_mcbond_other 0.229 r_chiral_restr 0.088 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9445 Nucleic Acid Atoms Solvent Atoms 972 Heterogen Atoms 89
Software Software Software Name Purpose MolProbity model building PDB_EXTRACT data extraction SHELX phasing SHARP phasing SCALA data scaling REFMAC refinement MOSFLM data reduction autoSHARP phasing