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Acetivibrio clariflavus beta-1,4-xylanase of Glycoside Hydrolase Family 10 (AcXyn10A).
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.4 293.15 H6 conditions of JCSG+ HTS 0.1 M Ammonium acetate 0.1 M BIS-Tris, 17 % w/v PEG 10,000
109.79mM Xyltetraose (10X) with AcXynA protein in buffer containing 50mM NaCl, 20mM Tris-Cl
Crystal Properties Matthews coefficient Solvent content 3.27243114 62.436615
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.566 α = 90 b = 88.916 β = 90 c = 173.479 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 PIXEL DECTRIS EIGER2 XE 16M 2021-07-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9793 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.24 89.58 99.81 0.166 0.173 0.05 0.997 8 12.7 61326 46.76
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.24 2.29 100 2.685 0.764 0.405 13.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD FREE R-VALUE 2.24 62.089 60339 3049 99.376 0.207 0.206 0.2155 0.2316 0.2409 52.222
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] -0.412 -0.407 0.819
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.934 r_dihedral_angle_6_deg 13.832 r_dihedral_angle_1_deg 6.278 r_dihedral_angle_2_deg 5.448 r_lrange_it 2.386 r_lrange_other 2.38 r_scangle_it 1.196 r_scangle_other 1.195 r_mcangle_it 1.174 r_mcangle_other 1.174
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.934 r_dihedral_angle_6_deg 13.832 r_dihedral_angle_1_deg 6.278 r_dihedral_angle_2_deg 5.448 r_lrange_it 2.386 r_lrange_other 2.38 r_scangle_it 1.196 r_scangle_other 1.195 r_mcangle_it 1.174 r_mcangle_other 1.174 r_angle_refined_deg 0.95 r_scbond_it 0.706 r_scbond_other 0.706 r_mcbond_it 0.674 r_mcbond_other 0.674 r_angle_other_deg 0.341 r_symmetry_xyhbond_nbd_refined 0.228 r_nbd_other 0.209 r_symmetry_nbd_refined 0.196 r_nbd_refined 0.192 r_symmetry_nbd_other 0.181 r_nbtor_refined 0.173 r_xyhbond_nbd_refined 0.156 r_symmetry_nbtor_other 0.074 r_chiral_restr 0.049 r_ncsr_local_group_1 0.04 r_symmetry_xyhbond_nbd_other 0.005 r_gen_planes_refined 0.004 r_bond_refined_d 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6578 Nucleic Acid Atoms Solvent Atoms 151 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2.multiplex data scaling PHASER phasing