☰ Navigation Tabs
Crystal structure of 2-methylcitrate synthase (PrpC) from Salmonella typhimurium
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1A59 N- (1-12) and C- terminal (361-378) deletion construct of the AbGltA (PDB: 1A59) dimer
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 297 0.1M Bicine, 18% PEG 4000, 1.4M ammonium sulfate, 0.2M trisodium citrate , pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 297K
Crystal Properties Matthews coefficient Solvent content 2.36 47.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.068 α = 60.84 b = 118.159 β = 67.77 c = 120.659 γ = 81.92
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAR scanner 345 mm plate Mirror 2008-07-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.4 50 90.2 0.092 22.17 1.7 160794 38.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.4 2.49 72.5 0.194 4.18
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 N- (1-12) and C- terminal (361-378) deletion construct of the AbGltA (PDB: 1A59) dimer 2.41 50 159324 137700 7257 91.02 0.22094 0.21762 0.2203 0.28247 0.2823 RANDOM 40.815
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] 1.71 0.1 -0.05 1.47 -3.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.849 r_dihedral_angle_3_deg 17.784 r_dihedral_angle_4_deg 16.387 r_dihedral_angle_1_deg 5.443 r_scangle_it 1.751 r_angle_refined_deg 1.147 r_scbond_it 1.086 r_mcangle_it 0.762 r_mcbond_it 0.411 r_chiral_restr 0.084
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.849 r_dihedral_angle_3_deg 17.784 r_dihedral_angle_4_deg 16.387 r_dihedral_angle_1_deg 5.443 r_scangle_it 1.751 r_angle_refined_deg 1.147 r_scbond_it 1.086 r_mcangle_it 0.762 r_mcbond_it 0.411 r_chiral_restr 0.084 r_bond_refined_d 0.008 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 27985 Nucleic Acid Atoms Solvent Atoms 1178 Heterogen Atoms 66
Software Software Software Name Purpose MAR345dtb data collection PHASER phasing REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling