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Crystal structure of Mycobacterium tuberculosis Indole Glycerol Phosphate Synthase (IGPS) in complex with indole glycerol phosphate (IGP) amd anthranilate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1IGS PDB entry 1IGS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 298 0.1M Sodium acetate trihydrate, 2.0 ammonium sulfate, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.92 35.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.553 α = 90 b = 53.222 β = 90 c = 86.855 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 mirrors 2009-08-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9771 APS 19-ID
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 1.6 50 99.8 0.112 0.112 10 7.1 28784 28784 14.5
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 1.6 1.63 100 0.454 0.454 5.48 7.2 1390
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 PDB entry 1IGS 1.6 26.61 28717 1464 98.68 0.1505 0.1482 0.1569 0.195 0.2099 RANDOM 20.7094
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] 0.1 -0.04 -0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.822 r_dihedral_angle_4_deg 16.761 r_dihedral_angle_3_deg 11.33 r_dihedral_angle_1_deg 4.859 r_scangle_it 3.607 r_scbond_it 2.519 r_mcangle_it 1.516 r_angle_refined_deg 1.287 r_mcbond_it 1.026 r_angle_other_deg 0.889
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.822 r_dihedral_angle_4_deg 16.761 r_dihedral_angle_3_deg 11.33 r_dihedral_angle_1_deg 4.859 r_scangle_it 3.607 r_scbond_it 2.519 r_mcangle_it 1.516 r_angle_refined_deg 1.287 r_mcbond_it 1.026 r_angle_other_deg 0.889 r_mcbond_other 0.406 r_symmetry_vdw_other 0.241 r_nbd_refined 0.216 r_nbd_other 0.207 r_nbtor_refined 0.171 r_symmetry_vdw_refined 0.155 r_symmetry_hbond_refined 0.154 r_xyhbond_nbd_refined 0.144 r_nbtor_other 0.095 r_chiral_restr 0.071 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1849 Nucleic Acid Atoms Solvent Atoms 292 Heterogen Atoms 29
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection