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Crystal structure of a putative sugar-phosphate isomerase (lmof2365_0531) from listeria monocytogenes str. 4b f2365 at 1.60 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.9 277 NANODROP, 0.2M Mg formate, 20.0% PEG 3350, No Buffer pH 5.9, VAPOR DIFFUSION, SITTING DROP, temperature 277K 2 VAPOR DIFFUSION, SITTING DROP 6.3 277 NANODROP, 0.2M NH4Cl, 20.0% PEG 3350, No Buffer pH 6.3, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.944 α = 90 b = 57.944 β = 90 c = 197.964 γ = 120
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 2 2 x-ray 100 CCD MARMOSAIC 300 mm CCD Adjustable focusing mirrors in K-B geometry 2008-10-12 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 0.94645 APS 23-ID-B 2 SYNCHROTRON APS BEAMLINE 23-ID-B 0.97966, 0.94645 APS 23-ID-B
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 1,2 1.6 28.976 99.6 0.085 0.085 5.726 4.7 97660 20.164
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) 1,2 1.6 1.64 97.2 0.652 0.652 1.8 3.3 7053
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 + MOLECULAR REPLACEMENT THROUGHOUT 1.6 28.976 97613 4850 99.5 0.135 0.133 0.1405 0.157 0.1412 RANDOM + TWIN LAW 18.562
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] 4.62 4.62 -9.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.651 r_dihedral_angle_4_deg 15.858 r_dihedral_angle_3_deg 10.881 r_scangle_it 4.574 r_dihedral_angle_1_deg 3.473 r_scbond_it 3.229 r_mcangle_it 1.822 r_angle_refined_deg 1.605 r_angle_other_deg 1.339 r_mcbond_it 1.154
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.651 r_dihedral_angle_4_deg 15.858 r_dihedral_angle_3_deg 10.881 r_scangle_it 4.574 r_dihedral_angle_1_deg 3.473 r_scbond_it 3.229 r_mcangle_it 1.822 r_angle_refined_deg 1.605 r_angle_other_deg 1.339 r_mcbond_it 1.154 r_mcbond_other 0.267 r_chiral_restr 0.094 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5695 Nucleic Acid Atoms Solvent Atoms 443 Heterogen Atoms 8
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling SHELX phasing SHARP phasing PHASER phasing REFMAC refinement MolProbity model building PDB_EXTRACT data extraction MAR345 data collection SHELXD phasing autoSHARP phasing