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Structure of homologously expressed Ferrulate esterase of Aspergillus niger in complex with CAPS
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3TGL PDB ENTRY 3TGL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 10 298 2.05M Ammoniumsulfate, 0.09M CAPS, 10% Ethyleneglycol , pH 10.0, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 2.6 52.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 145.52 α = 90 b = 51.7 β = 127.98 c = 99.588 γ = 90
Symmetry Space Group C 1 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 IMAGE PLATE MAR scanner 345 mm plate 2003-03-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID13 0.934 ESRF ID13
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 1.55 39.21 48.1 0.071 0.071 6.2 2.8 227158 81359 2 2 15.095
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 1.55 1.63 46.3 0.347 0.347 2.1 2.6 11375
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 3TGL 1.55 39.21 227158 81358 4079 96.03 0.165 0.165 0.163 0.1762 0.196 0.2059 RANDOM 13.15
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] -0.08 -0.61 -0.13 -0.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.393 r_dihedral_angle_3_deg 11.601 r_dihedral_angle_4_deg 9.659 r_dihedral_angle_1_deg 6.07 r_scangle_it 3.425 r_scbond_it 2.364 r_angle_refined_deg 1.427 r_mcangle_it 1.316 r_mcbond_it 1.092 r_angle_other_deg 0.934
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.393 r_dihedral_angle_3_deg 11.601 r_dihedral_angle_4_deg 9.659 r_dihedral_angle_1_deg 6.07 r_scangle_it 3.425 r_scbond_it 2.364 r_angle_refined_deg 1.427 r_mcangle_it 1.316 r_mcbond_it 1.092 r_angle_other_deg 0.934 r_symmetry_vdw_other 0.266 r_mcbond_other 0.223 r_nbd_refined 0.215 r_nbd_other 0.198 r_nbtor_refined 0.181 r_symmetry_hbond_refined 0.151 r_xyhbond_nbd_refined 0.138 r_nbtor_other 0.091 r_chiral_restr 0.084 r_symmetry_vdw_refined 0.076 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3988 Nucleic Acid Atoms Solvent Atoms 617 Heterogen Atoms 180
Software Software Software Name Purpose SCALA data scaling AMoRE phasing REFMAC refinement PDB_EXTRACT data extraction DENZO data reduction CCP4 data scaling