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N-Acetylmannosamine-6-phosphate 2-epimerase from Staphylococcus aureus (strain MRSA USA300)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Y0E
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293.15 1 M trisodium citrate, 0.1 M sodium cacodylate, pH 6.5
Crystal Properties Matthews coefficient Solvent content 3.03 59.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.431 α = 90 b = 77.067 β = 90 c = 173.745 γ = 90
Symmetry Space Group P 2 21 21
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 315r 2013-07-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.95370 Australian Synchrotron MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 1.84 46.34 99.7 0.995 10.8 3.6 52642
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.84 1.906 0.592
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT 1Y0E 1.84 46.34 50648 1993 99.7 0.1807 0.1797 0.1887 0.2005 0.2097 RANDOM 16.312
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] -0.89 -0.09 0.98
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.703 r_dihedral_angle_4_deg 22.021 r_dihedral_angle_3_deg 10.739 r_dihedral_angle_1_deg 5.862 r_angle_refined_deg 1.144 r_angle_other_deg 1.099 r_chiral_restr 0.041 r_gen_planes_refined 0.003 r_bond_refined_d 0.002 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.703 r_dihedral_angle_4_deg 22.021 r_dihedral_angle_3_deg 10.739 r_dihedral_angle_1_deg 5.862 r_angle_refined_deg 1.144 r_angle_other_deg 1.099 r_chiral_restr 0.041 r_gen_planes_refined 0.003 r_bond_refined_d 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3440 Nucleic Acid Atoms Solvent Atoms 585 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PHASER phasing PDB_EXTRACT data extraction XDS data reduction