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Family 37 trehalase from Escherichia coli in complex with 1- thiatrehazolin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2JF4 PBD ENTRY 2JF4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 15 MG/ML PROTEIN, 25% PEG3350 AND 0.1 M BIS-TRIS HCL, PH 6.5.
Crystal Properties Matthews coefficient Solvent content 2.2 43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.184 α = 90 b = 101.719 β = 90 c = 102.509 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 CCD TOROIDAL MIRROR M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 ESRF ID29
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 1.5 30 100 0.09 12.6 5.3 83167
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 1.5 1.58 100 0.35 4 5.3
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 PBD ENTRY 2JF4 1.5 28.36 78956 4113 100 0.149 0.147 0.156 0.189 0.1971 RANDOM 8.5
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] -0.17 0.44 -0.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.965 r_dihedral_angle_4_deg 13.75 r_dihedral_angle_3_deg 12.782 r_dihedral_angle_1_deg 5.121 r_scangle_it 2.997 r_scbond_it 2.222 r_mcangle_it 1.619 r_angle_refined_deg 1.477 r_mcbond_it 1.204 r_angle_other_deg 0.946
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.965 r_dihedral_angle_4_deg 13.75 r_dihedral_angle_3_deg 12.782 r_dihedral_angle_1_deg 5.121 r_scangle_it 2.997 r_scbond_it 2.222 r_mcangle_it 1.619 r_angle_refined_deg 1.477 r_mcbond_it 1.204 r_angle_other_deg 0.946 r_symmetry_vdw_other 0.247 r_nbd_refined 0.226 r_nbd_other 0.204 r_nbtor_refined 0.189 r_symmetry_hbond_refined 0.147 r_xyhbond_nbd_refined 0.127 r_symmetry_vdw_refined 0.115 r_nbtor_other 0.089 r_chiral_restr 0.088 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 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_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_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 4040 Nucleic Acid Atoms Solvent Atoms 676 Heterogen Atoms 25
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling AMoRE phasing