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Crystal structure of the complex between the mycobacterium beta-ketoacyl-acyl carrier protein synthase III (FABH) and SS-(2-hydroxyethyl)-O-decyl ester carbono(dithioperoxoic) acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HZP PDB ENTRY 1HZP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 293 50MM SODIUM ACETATE, 2.4M SODIUM FORMATE, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.34 47.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.03 α = 90 b = 88.85 β = 90 c = 229.74 γ = 90
Symmetry Space Group C 2 2 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 IMAGE PLATE RIGAKU RAXIS IV RIGAKU VARIMAX CONFOCAL OPTICS 2005-10-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.3 48.88 99.3 0.089 19.6 12.43 31445 31228 31.6
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.3 2.38 96.7 0.206 9.5 7.98 3089
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1HZP 2.3 14.81 31113 31099 3115 99.96 0.16959 0.16383 0.1711 0.22236 RANDOM 28.921
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] 0.81 -0.59 -0.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.577 r_dihedral_angle_4_deg 18.516 r_dihedral_angle_3_deg 14.229 r_scangle_it 5.754 r_dihedral_angle_1_deg 5.58 r_scbond_it 4.558 r_mcangle_it 2.523 r_mcbond_it 1.464 r_angle_refined_deg 1.108 r_nbtor_refined 0.297
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.577 r_dihedral_angle_4_deg 18.516 r_dihedral_angle_3_deg 14.229 r_scangle_it 5.754 r_dihedral_angle_1_deg 5.58 r_scbond_it 4.558 r_mcangle_it 2.523 r_mcbond_it 1.464 r_angle_refined_deg 1.108 r_nbtor_refined 0.297 r_nbd_refined 0.185 r_symmetry_hbond_refined 0.152 r_symmetry_vdw_refined 0.15 r_xyhbond_nbd_refined 0.111 r_chiral_restr 0.07 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4871 Nucleic Acid Atoms Solvent Atoms 367 Heterogen Atoms 60
Software Software Software Name Purpose AMoRE phasing REFMAC refinement CrystalClear data collection d*TREK data reduction d*TREK data scaling