☰ Navigation Tabs
Structure of Mycobacterium tuberculosis Type II Dehydroquinase inhibited by (2S)-2-(4-methoxy)benzyl-3-dehydroquinic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1H0S PDB ENTRY 1H0S
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 32% (V/V) 2-METHYL-2, 4-PENTANEDIOL, 0.3 M AMMONIUM SULFATE, 0.1 M 4-(2-HYDROXYETHYL)-PIPERAZINE-1-ETHANESULFONIC ACID SODIUM SALT (HEPES) PH 7.5
Crystal Properties Matthews coefficient Solvent content 2.7 54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 126.19 α = 90 b = 126.19 β = 90 c = 126.19 γ = 90
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 210 VERTICALLY BENDED MULTILAYER MIRRORS 2010-11-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 ESRF ID14-1
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 63.1 100 0.1 6.9 7.4 11386 13.2
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) 1 2 2.11 100 0.33 2.3 7.4
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 1H0S 2 38.05 10274 1104 100 0.14735 0.14402 0.1501 0.17799 0.1817 RANDOM 11.739
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.131 r_dihedral_angle_4_deg 14.463 r_dihedral_angle_3_deg 12.949 r_dihedral_angle_1_deg 6.89 r_scangle_it 3.168 r_scbond_it 1.982 r_mcangle_it 1.613 r_angle_refined_deg 1.418 r_mcbond_it 0.926 r_angle_other_deg 0.906
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.131 r_dihedral_angle_4_deg 14.463 r_dihedral_angle_3_deg 12.949 r_dihedral_angle_1_deg 6.89 r_scangle_it 3.168 r_scbond_it 1.982 r_mcangle_it 1.613 r_angle_refined_deg 1.418 r_mcbond_it 0.926 r_angle_other_deg 0.906 r_symmetry_hbond_refined 0.261 r_nbd_refined 0.223 r_xyhbond_nbd_refined 0.216 r_symmetry_vdw_other 0.206 r_mcbond_other 0.198 r_nbd_other 0.187 r_nbtor_refined 0.171 r_symmetry_hbond_other 0.153 r_symmetry_vdw_refined 0.138 r_chiral_restr 0.089 r_nbtor_other 0.083 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1080 Nucleic Acid Atoms Solvent Atoms 116 Heterogen Atoms 42
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing