☰ Navigation Tabs
AA10 lytic polysaccharide monooxygenase (LPMO) from Streptomyces lividans
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BEM PDB ENTRY 2BEM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.6 0.05 M SODIUM ACETATE PH 4.6, 25 % PEG 4,000
Crystal Properties Matthews coefficient Solvent content 2.01 38.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.62 α = 90 b = 32.43 β = 97.77 c = 61.32 γ = 90
Symmetry Space Group C 1 2 1
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 MIRRORS 2015-05-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 Diamond I03
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 1.38 31.9 97.3 0.06 14.8 4.9 27360
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 1.38 1.4 92.2 0.68 1.8 3.5
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 PDB ENTRY 2BEM 1.38 60.76 25943 1410 96.91 0.13634 0.13504 0.1462 0.15999 0.1682 RANDOM 13.849
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] -0.19 0.09 -0.5 0.64
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.712 r_dihedral_angle_4_deg 15.057 r_dihedral_angle_3_deg 12.075 r_dihedral_angle_1_deg 6.646 r_scbond_it 2.149 r_angle_refined_deg 1.721 r_mcangle_it 1.665 r_mcbond_it 1.178 r_mcbond_other 1.035 r_angle_other_deg 1.027
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.712 r_dihedral_angle_4_deg 15.057 r_dihedral_angle_3_deg 12.075 r_dihedral_angle_1_deg 6.646 r_scbond_it 2.149 r_angle_refined_deg 1.721 r_mcangle_it 1.665 r_mcbond_it 1.178 r_mcbond_other 1.035 r_angle_other_deg 1.027 r_chiral_restr 0.114 r_bond_refined_d 0.017 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_it 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 1304 Nucleic Acid Atoms Solvent Atoms 233 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement xia2 data reduction Aimless data scaling BALBES phasing