☰ Navigation Tabs
GH51 a-l-arabinofuranosidase soaked with cyclic sulfate inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1PZ3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 2:1 protein:well solution. 0.1 M pH 7.5 Tris-HCl buffer, 18% PEG3350, 0.7 M NH4F, 5% 2-propanol
Crystal Properties Matthews coefficient Solvent content 2.69 56.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 178.47 α = 90 b = 178.47 β = 90 c = 100.411 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M-F 2018-09-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.91587 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 1.398 29.75 99.8 0.048 0.999 18.7 6.2 235395
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.43 97.4 0.634 0.776 2.3 6.1
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1PZ3 1.398 29.75 235394 12421 99.762 0.155 0.1548 0.1548 0.162 0.1619 16.403
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] 0.052 0.026 0.052 -0.167
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.557 r_dihedral_angle_4_deg 17.327 r_dihedral_angle_3_deg 11.372 r_dihedral_angle_1_deg 7.108 r_lrange_it 5.47 r_lrange_other 5.293 r_scangle_it 4.746 r_scangle_other 4.745 r_scbond_it 3.43 r_scbond_other 3.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.557 r_dihedral_angle_4_deg 17.327 r_dihedral_angle_3_deg 11.372 r_dihedral_angle_1_deg 7.108 r_lrange_it 5.47 r_lrange_other 5.293 r_scangle_it 4.746 r_scangle_other 4.745 r_scbond_it 3.43 r_scbond_other 3.43 r_mcangle_other 2.684 r_mcangle_it 2.681 r_angle_other_deg 2.437 r_mcbond_it 2.003 r_angle_refined_deg 1.996 r_mcbond_other 1.996 r_chiral_restr 0.468 r_symmetry_nbd_refined 0.347 r_nbd_other 0.278 r_nbd_refined 0.224 r_symmetry_nbd_other 0.211 r_nbtor_refined 0.176 r_xyhbond_nbd_refined 0.135 r_symmetry_xyhbond_nbd_refined 0.117 r_symmetry_nbtor_other 0.078 r_bond_other_d 0.035 r_gen_planes_other 0.022 r_bond_refined_d 0.017 r_gen_planes_refined 0.013
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7800 Nucleic Acid Atoms Solvent Atoms 911 Heterogen Atoms 77
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing