☰ Navigation Tabs
CjMan26C bound to covalent beta-mannanase inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4CD4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.6 293 2% tacsimate, 0.1 M Sodium citrate tribasic dihydrate pH 5.6, 16% PEG3350
Crystal Properties Matthews coefficient Solvent content 2.81 56.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.802 α = 90 b = 84.802 β = 90 c = 245.94 γ = 120
Symmetry Space Group P 61 2 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 EIGER2 XE 16M 2020-11-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.80 Diamond I03
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 1.16 73.43 100 0.999 11.6 39 180225 0.5
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 1.16 1.18 100 0.33 6.1
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 MOLECULAR REPLACEMENT FREE R-VALUE 1.2 70.469 162967 8303 99.957 0.131 0.1297 0.1297 0.1488 0.1489 12.788
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] -0.027 -0.014 -0.027 0.088
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.794 r_dihedral_angle_4_deg 16.559 r_dihedral_angle_3_deg 12.081 r_rigid_bond_restr 7.591 r_dihedral_angle_1_deg 6.286 r_scbond_it 3.61 r_scbond_other 3.609 r_scangle_it 3.437 r_scangle_other 3.436 r_lrange_it 3.422
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.794 r_dihedral_angle_4_deg 16.559 r_dihedral_angle_3_deg 12.081 r_rigid_bond_restr 7.591 r_dihedral_angle_1_deg 6.286 r_scbond_it 3.61 r_scbond_other 3.609 r_scangle_it 3.437 r_scangle_other 3.436 r_lrange_it 3.422 r_lrange_other 3.199 r_mcbond_it 2.767 r_mcbond_other 2.632 r_mcangle_other 2.407 r_mcangle_it 2.385 r_angle_refined_deg 1.973 r_angle_other_deg 1.644 r_symmetry_xyhbond_nbd_refined 0.321 r_symmetry_nbd_refined 0.272 r_nbd_refined 0.231 r_nbd_other 0.205 r_nbtor_refined 0.187 r_symmetry_nbd_other 0.184 r_xyhbond_nbd_refined 0.139 r_chiral_restr 0.125 r_metal_ion_refined 0.107 r_symmetry_nbtor_other 0.1 r_bond_refined_d 0.016 r_gen_planes_refined 0.013 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2937 Nucleic Acid Atoms Solvent Atoms 412 Heterogen Atoms 25
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling MOLREP phasing