☰ Navigation Tabs
A carbohydrate binding module family 9 (CBM9) from Caldicellulosiruptor kristjanssonii in complex with glucose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1I8U
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.2 293 0.1 M phosphate-citrate and 40% polyethylene glycol 300
Crystal Properties Matthews coefficient Solvent content 4.35 71.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 172.61 α = 90 b = 172.61 β = 90 c = 172.61 γ = 90
Symmetry Space Group I 4 3 2
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 2019-10-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 1.000000 PETRA III, EMBL c/o DESY P13 (MX1)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.7 49.878 99.95 0.999 17.11 21.7 12395
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.7 2.797 0.343
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 1i8u 2.7 49.83 12391 1240 99.96 0.264 0.2561 0.2562 0.3342 0.334 89.965
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.903 r_dihedral_angle_3_deg 16.64 r_lrange_it 14.04 r_dihedral_angle_4_deg 11.639 r_mcangle_it 8.376 r_scangle_it 7.602 r_dihedral_angle_1_deg 7.045 r_mcbond_it 5.26 r_scbond_it 5.1 r_angle_refined_deg 1.046
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.903 r_dihedral_angle_3_deg 16.64 r_lrange_it 14.04 r_dihedral_angle_4_deg 11.639 r_mcangle_it 8.376 r_scangle_it 7.602 r_dihedral_angle_1_deg 7.045 r_mcbond_it 5.26 r_scbond_it 5.1 r_angle_refined_deg 1.046 r_nbtor_refined 0.315 r_symmetry_xyhbond_nbd_refined 0.253 r_symmetry_nbd_refined 0.245 r_nbd_refined 0.228 r_metal_ion_refined 0.216 r_xyhbond_nbd_refined 0.176 r_chiral_restr 0.079 r_gen_planes_refined 0.004 r_bond_refined_d 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1549 Nucleic Acid Atoms Solvent Atoms 100 Heterogen Atoms 104
Software Software Software Name Purpose REFMAC refinement PHENIX phasing