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Crystal structure of Arthrobacter sp. strain SU 4-hydroxybenzoyl CoA thioesterase mutant H64A complexed with 4-hydroxyphenacyl CoA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Q4S PDB entry 1q4S
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 20% PEG3400, 100 mM MOPS, 200 mM LiCl, 1 mM 4-HYDROXYPHENACYL COA, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.39 63.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 112.6 α = 90 b = 112.6 β = 90 c = 60.6 γ = 120
Symmetry Space Group P 32 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 AREA DETECTOR SIEMENS HI-STAR goebel mirrors 2002-07-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.54178
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 1.8 30 94.2 0.064 0.064 27.9 3.9 36908 36908
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 1.8 1.85 82 0.297 0.297 2 2.2 2356
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 (All) 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 1q4S 1.8 30 36908 36908 1956 94.19 0.19555 0.19555 0.19364 0.1876 0.23247 0.2242 RANDOM 33.115
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] -0.71 -0.36 -0.71 1.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.449 r_dihedral_angle_4_deg 16.409 r_dihedral_angle_3_deg 14.229 r_scangle_it 6.853 r_dihedral_angle_1_deg 6.468 r_scbond_it 4.738 r_mcangle_it 3.108 r_angle_refined_deg 2.176 r_mcbond_it 2.044 r_chiral_restr 0.171
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.449 r_dihedral_angle_4_deg 16.409 r_dihedral_angle_3_deg 14.229 r_scangle_it 6.853 r_dihedral_angle_1_deg 6.468 r_scbond_it 4.738 r_mcangle_it 3.108 r_angle_refined_deg 2.176 r_mcbond_it 2.044 r_chiral_restr 0.171 r_bond_refined_d 0.012 r_gen_planes_refined 0.011 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined 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 2126 Nucleic Acid Atoms Solvent Atoms 222 Heterogen Atoms 116
Software Software Software Name Purpose FRAMBO data collection AMoRE phasing REFMAC refinement SAINT data reduction SAINT data scaling