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Crystal structure of putative tagatose 6-phosphate kinase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 298 PED 3350, 10 mM NaCl, 50mM MgCl2, Tris-Bis pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.51 50.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.352 α = 90 b = 100.001 β = 90 c = 206.549 γ = 90
Symmetry Space Group P 21 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 315 2005-11-01 M SINGLE WAVELENGTH 2 1 x-ray 100 M SINGLE WAVELENGTH 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 1.074 NSLS X29A 2 SYNCHROTRON NSLS BEAMLINE X9A 0.98 NSLS X9A
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 2.25 50 97.7 0.059 0.046 20.8 4.6 89439 89439 38.075
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 2.25 2.33 99 0.335 0.277 3.54 4.6 8902
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 2.25 50 89327 89327 4483 97.72 0.189 0.187 0.187 0.1842 0.233 RANDOM 37.744
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] 1.06 -1.07 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.905 r_dihedral_angle_4_deg 18.423 r_dihedral_angle_3_deg 16.545 r_dihedral_angle_1_deg 5.816 r_scangle_it 2.663 r_scbond_it 1.93 r_angle_refined_deg 1.38 r_mcangle_it 1.017 r_mcbond_it 0.758 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.905 r_dihedral_angle_4_deg 18.423 r_dihedral_angle_3_deg 16.545 r_dihedral_angle_1_deg 5.816 r_scangle_it 2.663 r_scbond_it 1.93 r_angle_refined_deg 1.38 r_mcangle_it 1.017 r_mcbond_it 0.758 r_nbtor_refined 0.302 r_symmetry_vdw_refined 0.228 r_nbd_refined 0.203 r_symmetry_hbond_refined 0.172 r_xyhbond_nbd_refined 0.152 r_chiral_restr 0.09 r_bond_refined_d 0.017 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12957 Nucleic Acid Atoms Solvent Atoms 724 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction CBASS data collection SHELXE model building RESOLVE phasing