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Structure of CBM35 in complex with aldouronic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4QB1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 20% PEG 6000, 0.2M Calcium chloride, 0.1M HEPES, pH 7, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.78 55.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.78 α = 90 b = 47.35 β = 90 c = 103.03 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 120 PIXEL DECTRIS PILATUS 6M-F 2014-03-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.976250 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.35 31.485 100 0.084 0.026 17.3 11.5 502825 43659 1 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.35 1.42 100 0.427 0.13 6.6 11.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 4QB1 1.35 51.51 502825 41390 2192 99.96 0.16505 0.16439 0.1675 0.17736 0.1803 RANDOM 11.661
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] 0.65 0.17 -0.82
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.577 r_dihedral_angle_4_deg 15.884 r_dihedral_angle_3_deg 11.064 r_dihedral_angle_1_deg 7.032 r_long_range_B_refined 4.138 r_long_range_B_other 3.933 r_scangle_other 2.277 r_mcangle_other 1.703 r_mcangle_it 1.694 r_angle_refined_deg 1.577
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.577 r_dihedral_angle_4_deg 15.884 r_dihedral_angle_3_deg 11.064 r_dihedral_angle_1_deg 7.032 r_long_range_B_refined 4.138 r_long_range_B_other 3.933 r_scangle_other 2.277 r_mcangle_other 1.703 r_mcangle_it 1.694 r_angle_refined_deg 1.577 r_scbond_it 1.531 r_scbond_other 1.53 r_mcbond_it 1.03 r_mcbond_other 1.002 r_angle_other_deg 0.795 r_chiral_restr 0.096 r_bond_refined_d 0.014 r_gen_planes_refined 0.008 r_gen_planes_other 0.003 r_bond_other_d 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 980 Nucleic Acid Atoms Solvent Atoms 100 Heterogen Atoms 23
Software Software Software Name Purpose MOLREP phasing REFMAC refinement XDS data reduction SCALA data scaling